Advertisements

Charleston Old Slave Mart

Advertisements

Genetics: Skin Color and Race

Skin color and ‘race’: Genetics reveal complicated relationship

| | December 7, 2017

For much of recorded history, skin color has been loaded with powerful social meaning. Skin color plays a major part in how we define race. It also plays a significant role in racism. New studies of the genetics of skin color, though, have begun to shed light on how wrong those assumptions about the relationship between race and skin color really are.

In a new study of indigenous southern African people published … in the journal Cell, researchers … report that the number of genes involved in skin pigmentation increase in number—and therefore also complexity—the closer they reside to the equator.

[C]olor lines are, in essence, meaningless. Our skin color is the result of many, many different genes which work together in different combinations to produce different colors of skin. Many of those genes are shared across racial, cultural, and geographic boundaries.

These new studies of skin color also suggest a second theme: In genetics, the vast majority of data has been gathered from Northern Eurasian populations, and that in turn has created a biased and incomplete portrait of how the genetics of things like skin color really work.

[Editor’s note: Read full study

Read full, original post: How the Genetics of Skin Color Challenges Antiquated Ideas About Race

forwarded from the Genetic Literacy Project arch 12, 2018

Characterizing the Admixed African Ancestry of African Americans

This article is relevant today as African American seek out their connections and ancestry with people of Africa. This questions the use and reliance on DNA testing with companies in the US.

. 2009; 10(12): R141.
Published online 2009 Dec 22. doi:  10.1186/gb-2009-10-12-r141
PMCID: PMC2812948
PMID: 20025784

Characterizing the admixed African ancestry of African Americans

Abstract

Background

Accurate, high-throughput genotyping allows the fine characterization of genetic ancestry. Here we applied recently developed statistical and computational techniques to the question of African ancestry in African Americans by using data on more than 450,000 single-nucleotide polymorphisms (SNPs) genotyped in 94 Africans of diverse geographic origins included in the HGDP, as well as 136 African Americans and 38 European Americans participating in the Atherosclerotic Disease Vascular Function and Genetic Epidemiology (ADVANCE) study. To focus on African ancestry, we reduced the data to include only those genotypes in each African American determined statistically to be African in origin.

Results

From cluster analysis, we found that all the African Americans are admixed in their African components of ancestry, with the majority contributions being from West and West-Central Africa, and only modest variation in these African-ancestry proportions among individuals. Furthermore, by principal components analysis, we found little evidence of genetic structure within the African component of ancestry in African Americans.

Conclusions

These results are consistent with historic mating patterns among African Americans that are largely uncorrelated to African ancestral origins, and they cast doubt on the general utility of mtDNA or Y-chromosome markers alone to delineate the full African ancestry of African Americans. Our results also indicate that the genetic architecture of African Americans is distinct from that of Africans, and that the greatest source of potential genetic stratification bias in case-control studies of African Americans derives from the proportion of European ancestry.

Background

Numerous studies have estimated the rate of European admixture in African Americans; these studies have documented average admixture rates in the range of 10% to 20%, with some regional variation, but also with substantial variation among individuals []. For example, the largest study of African Americans to date, based on autosomal short tandem repeat (STR) markers, found an average of 14% European ancestry with a standard deviation of approximately 10%, and a range of near 0 to 65% [], whereas another study based on ancestry informative markers (AIMs) found an average of 17.7% European ancestry with a standard deviation of 15.0% []. By using nine AIMs, Parra and colleagues [] found substantial variation of European ancestry proportions in African-American populations across the United States, ranging from just over 10% in a Philadelphia group to more than 20% in a New Orleans population. Similar levels (11% to 15%) of European ancestry also were reported by Tishkoff and co-workers [], based on more than 1,000 nuclear microsatellite and insertion/deletion markers.

Although much attention has been paid in the genetics literature to the continental admixture underlying the genetic makeup of African Americans, less attention has been paid to the within-continental contribution to African Americans, in particular from the continent of Africa. Studies have focused primarily on the matrilineally inherited mitochondrial DNA (mtDNA) and patrilineally inherited Y chromosome []. These two DNA sources have gained wide prominence owing, in part, to their use by ancestry-testing companies to identify the regional and ethnic origins of their subscribers. Yet these two sources provide a very narrow perspective in delineating only two of possibly thousands of ancestral lineages in an individual.

The majority of African Americans derive their African ancestry from the approximately 500,000 to 650,000 Africans that were forcibly brought to British North America as slaves during the Middle Passage [,]. These individuals were deported primarily from various geographic regions of Western Africa, ranging from Senegal to Nigeria to Angola. Thus, it has been estimated that the majority of African Americans derive ancestry from these geographic regions, although more central and eastern locations also have contributed []. Recent studies of African and African-American mtDNA haplotypes and autosomal microsatellite markers also confirmed a broad range of Western Africa as the likely roots of most African Americans [,].

The recent development of high-density single-nucleotide polymorphism (SNP) genotyping assays, used primarily in genome-wide association (GWA) studies, has also provided unprecedented opportunities to address questions related to the evolution and migration patterns of humans. Most of the GWA studies to date have focused on European or European-derived populations of U.S. Caucasians, but a few have included minorities. The latter studies provide unique opportunities to address questions of ancestral origins in admixed populations, such as African Americans and Latinos [].

Although the application of high-density genotyping to a broad range of worldwide indigenous populations has not yet been accomplished, an important first step has been achieved through the recent genotyping of the Human Genome Diversity Panel (HGDP). This effort resulted in nearly 1,000 subjects from 51 populations being genotyped at more than 500,000 polymorphic sites [,]. These data now provide a basis for finer-scale analysis of the ancestral origins of admixed groups, such as African Americans and Latinos, in addition to enabling the accurate characterization of genetic and evolutionary relationships among these populations.

In this study, we characterize the African origins of African Americans by making use of the high-density genotype data generated for 94 HGDP indigenous Africans from differing geographic and linguistic groups, including 21 Mandenka from West Africa, 21 Yoruba from West Central Africa, 15 Bantu speakers from Southwestern and Eastern Africa, 20 Biaka Pygmy and 12 Mbuti Pygmy from Central Africa, and five San from Southern Africa []. These subjects are used to represent the potential African ancestors of 136 African Americans recently genotyped in a GWA study of early-onset coronary artery disease (ADVANCE) []. In addition, we include 38 U.S. Caucasian subjects from ADVANCE to represent the European ancestors of the African Americans.

The use of high-density SNP data for ancestral reconstruction presents some unique statistical and computational challenges. To this end, we previously developed analytic techniques for estimating individual ancestry (IA) from multiple populations (frappe), as well as for the reconstruction of ancestry blocks in admixed individuals (saber) by using data from more than 450,000 SNP genotypes [,]. Here, we provide a unique application of saber to identify the ancestral origins of each of the more than 450,000 genotypes in African-American individuals, to reduce the analysis to those genotypes that are exclusively of African origin. We note that 58 of the ADVANCE African Americans were also participants of the CARDIA study and had previously been analyzed with 42 Ancestry Informative Markers []. We also used principal components analysis (PCA) to define the genetic structure, and in particular the African genetic structure, underlying African Americans. Another recent study used principal components analysis for the African populations of HGDP, but did not relate those results to African Americans []. To our knowledge, the analyses reported here represent the first effort to characterize the African origin of African Americans by isolating the African-derived genome in each African American individual.

Results

African and European ancestry in African Americans

Principal components analysis of more than 450,000 SNPs, including all populations (Africans, African Americans, and US Caucasians), revealed, as expected, a major separation between the African and U.S. Caucasian populations along the first principal component (PC1), whereas the second principal component (PC2) led to the separation of the various African groups (Figure (Figure1).1). The two pygmy populations (Biaka, Mbuti) and the San of South Africa are well separated from the other African groups, whereas a greater genetic affinity appears to exist between the Mandenka of West Africa, the Yoruba of Central West Africa, and the Bantu speakers, who derive from Kenya and Southwestern Africa. It is also clear in Figure Figure11 that the African Americans lie on a direct line between the European Americans and the West Africans, reflecting their varying levels of admixture between these two ancestral groups.

An external file that holds a picture, illustration, etc. Object name is gb-2009-10-12-r141-1.jpg

Principal components analysis of Africans, U.S. Caucasians, and African Americans. Inset bar plot displays individual ancestry estimates for African Americans from a supervised structure analysis by using frappe with K = 7, fixing six African and one U.S. Caucasian populations. The color scheme of the bar plot matches that in the PCA plot.

These results were confirmed in the estimation of IA by using the program frappe (also in Figure Figure1).1). The amount of European ancestry shows considerable variation, with an average (± SD) of 21.9% ± 12.2%, and a range of 0 to 72% (Table (Table1).1). The largest African ancestral contribution comes from the Yoruba, with an average of 47.1% ± 8.7% (range, 18% to 64%), followed by the Bantu at 14.8% ± 5.0% (range, 3% to 28%) and Mandenka at 13.8% ± 4.5% (range, 3% to 29%). The contributions from the other three African groups were quite modest, with an average of 1.7% from the Biaka, 0.5% from the Mbuti, and 0.3% from the San. In the bar plot of frappe estimates, individuals (vertical bars) are arranged in order (left to right) corresponding to their value on the first PC coordinate. Clearly, this order correlates nearly perfectly with a decreasing proportion of European ancestry (Figure S1 in Additional file 1). Thus, the most important source of genetic structure in African Americans is based on the degree of European admixture.

Table 1

Estimates of European ancestry and proportional African ancestries in African Americans by US region of birth

U.S. region of birth Numbera European ancestry (%) Total African ancestry (%)b
Mandenka Yoruba Bantu Biaka Mbuti San

West 58 (58) 19.9 ± 8.5 18.9 ± 4.1 64.0 ± 5.3 13.7 ± 4.3 1.1 ± 0.8 0.2 ± 0.2 2.0 ± 0.5
South 12 (10) 24.0 ± 15.6 22.6 ± 5.7 60.0 ± 9.5 14.2 ± 5.4 1.1 ± 0.7 0.2 ± 0.4 1.9 ± 1.0
Midwest 4 (4) 19.4 ± 10.2 19.4 ± 2.0 64.0 ± 5.5 13.1 ± 5.5 0.9 ± 0.9 0.3 ± 0.3 2.2 ± 0.7
Southwest 2 (2) 17.0 ± 6.5 21.4 ± 0.7 65.1 ± 1.0 10.5 ± 0.3 1.1 ± 0.4 0.1 ± 0.0 1.7 ± 1.0
All 136 (128) 21.9 ± 12.2 19.2 ± 4.0 63.7 ± 4.9 13.8 ± 3.8 1.0 ± 0.8 0.2 ± 0.3 2.0 ± 0.6

aNumbers in parentheses are those used for estimation of African ancestries after removal of eight individuals with high values of European ancestry; birth-location information was missing for 60 individuals.

bBased on frappe analysis of African genotypes only (n = 128).

African components of ancestry in African Americans

We estimate that, on average, nearly 80% of the ancestry in our samples of African Americans is of African origin. A careful examination of the African component of ancestry in the African Americans is facilitated by restricting the analysis to those portions of their genomes that are exclusively of African origin. To do so, we used the program saber to infer European- versus African-derived alleles for each individual, and retained for analysis only those loci that had a high probability of harboring two African-derived alleles, while denoting the other genotypes as missing. For these and all subsequent analyses, we included the 128 African Americans whose estimated African ancestry exceeded 55%, based on the initial frappe analysis (see Methods).

As a validation of the accuracy of this partitioning procedure, we performed PCA on the combined set of U.S. Caucasians, Africans, and the African Americans with putative non-African-derived genotypes removed (that is, coded as missing). For comparison, we also examined the results of the same analysis, but including all of the genotype data of the African Americans. For these analyses, we included only the three African population groups that, based on the first analysis, contributed significantly to the African Americans (the Mandenka, Yoruba, and Bantu). As shown previously, when all genotypes are included, the African Americans lie intermediate between the Africans and European Americans, at varying distances based on their degree of admixture (Figure (Figure2a).2a). By contrast, when only the putative African-derived genotypes in the African Americans are included, the African Americans now cluster tightly with the Africans (Figure (Figure2b).2b). This result provides confidence that the application of saber has enabled us to partition accurately the genomes of the African Americans with regard to European versus African ancestry.

An external file that holds a picture, illustration, etc. Object name is gb-2009-10-12-r141-2.jpg

Principal components analysis of Africans, U.S. Caucasians, and African Americans including (a) all genotypes, and (b) only the genotypes of African origin in the African Americans. Comparison of (a) and (b) demonstrates the effective elimination of the European ancestry component from African Americans by using saber.

We then characterized the African ancestry in African Americans by performing PCA and estimating IA with frappe by using the U.S. Caucasians, Africans, and African Americans, with non-African genotypes removed. To determine whether we could distinguish the African populations from one another, we first ran frappe including all the 94 African individuals (setting K = 6). This unsupervised analysis unambiguously separated the San and Pygmy populations from the West Africans and, to a lesser degree, the three West African populations (Yoruba, Mandenka, and Bantu). To be confident in the groupings of the West African population, we performed a series of leave-one-out frappe analyses that include 57 individuals from the three West African populations: in each frappe run, we fixed all individual within their respective populations except for one, whose ancestry was allowed to be admixed and estimated (see Methods). Results are given in Figure S2 in Additional file 1. The close genetic relationship of these three groups is evidenced by the imperfect ancestry allocation to an individual’s own population. However, in every case, frappe assigns the majority ancestry to an individual’s own population, and in most cases, the large majority. The Bantu appear to have closest ancestry to the Yoruba. This is consistent with the Nigerian origins of the Yoruba and the presumed origins of the Bantu from the southwestern modern boundary of Nigeria and Cameroon [], and the subsequent migration of the Bantu east and south [,].

Figure Figure33 displays the PCA results of the African Americans and the three closely related African populations (Yoruba, Mandenka, and Bantu). Several features are worth comment. First, despite their genetic similarity, PCA shows clear separation among the Yoruba, Mandenka, and Bantu populations, based on the first two PCs. Second, Figure Figure33 reveals that the African Americans are placed as a single cluster in the convex hull defined by the three African groups.

An external file that holds a picture, illustration, etc. Object name is gb-2009-10-12-r141-3.jpg

Principal components analysis of three West and Central West African populations (Mandenka, Yoruba, and Bantu) and African Americans by using only African-origin genotypes in the African Americans.

Figure Figure44 presents the results of the frappe analysis of the 128 African Americans, in which the six HGDP African populations and Caucasians from ADVANCE were included in the analysis as fixed groups, and proportional ancestry estimated for the African Americans. Consistent with Figure Figure1,1, Figure Figure44 shows that all African Americans are estimated to have significant ancestry from each of the three West and Central West African groups (Mandenka, Yoruba, and Bantu), with only modest variation among individuals in their ancestral proportions from these three groups. As expected, little to no European ancestry is estimated in this frappe analysis.

An external file that holds a picture, illustration, etc. Object name is gb-2009-10-12-r141-4.jpg

Individual ancestry estimates in African Americans by using only their African genotypes, from a supervised structure analysis with frappe, including all six African populations and U.S. Caucasians as fixed (K = 7). Color coding of populations is the same as that in Figure 1.

Table Table11 provides the averages and standard deviations of IA derived from the frappe analysis described earlier (Figure (Figure4)4) for the African components of African ancestry for the 128 African Americans. Overall, we estimate within-Africa contributions of 64%, 19%, and 14% from Yoruba, Mandenka, and Bantu, respectively. The variances for the various African IA components are much smaller than those for the European IA and are roughly similar across groups (SD ranging from 0.038 to 0.049). These observations are consistent with visual inspection of the bar chart in Figure Figure4,4, that African Americans generally derive substantial ancestry from all three West and Central West African population groups. We also note from Table Table11 that no significant differences exist among African-American subgroups defined by U.S. region of birth, in terms of IA estimates for any African ancestral component, nor are any significant differences in IA found, based on gender (data not shown).

Thus, the PC and frappe analyses of the 128 African Americans based only on their African-derived genotypes suggest a lack of genetic structure within the African component of their ancestry. To assess this question further, we performed an additional PC analysis on only the African Americans, including only the African-derived genotypes for each individual.

Figure Figure55 shows the PCA restricted to African-derived genotypes within the African Americans. In this case, each PC accounts for a very modest amount of variance, and no clear pattern is evident. The distribution of the proportion of variance explained by each PC revealed a continuous distribution with no outliers (data not shown).

An external file that holds a picture, illustration, etc. Object name is gb-2009-10-12-r141-5.jpg

Principal components analysis of African Americans based on African-derived genotypes only. Little evidence for structure exists in the African component of ancestry.

To confirm that this lack of structure was not an artifact of removing genotype data, we performed a similar PC analysis on the original 94 Africans, but randomly deleting genotypes from these subjects at a rate comparable to the genotype removal rate in the African Americans (see Methods). Results are shown in Figure S3a (full genotype data) and Figure S3b (genotype data removed) in Additional file 1. As can be seen, the two figures appear nearly identical, each demonstrating the structure that exists among these African populations. Thus, the deletion of genotypes did little to diminish the display of population structure, and so the lack of structure that we observed within the African Americans (after removing non-African genotypes) is unlikely due to missing genotype data.

Another question relates to potential impact of missing genotypes on the frappe analysis of the African Americans. Individuals with high levels of European ancestry (who have more genotype data removed) provide less information regarding their African ancestral components, and thus the variance of the African components of IA increases with the amount of European ancestry, but not in a directional way.

Discussion

As expected, PCA on our entire sample revealed the greatest genetic differentiation between the US Caucasians and the Africans, with the African Americans intermediate between them, reflecting their recent admixture between ancestors from Europe and Africa. Our estimate of European individual admixture (IA) in the African Americans was also roughly consistent with prior studies [], with an average of 21.9%. We found considerable variation among individuals in terms of European IA, and a number of individuals with particularly high European IA values (eight individuals of 136, or 6% with values greater than 45%).

Prior studies focusing on mtDNA and Y chromosomes have found a greater African and lesser European representation of mtDNA haplotypes compared with Y chromosome haplotypes in African Americans, suggesting a greater contribution of African matrilineal descent compared with patrilineal descent [,]. For example, Kayser and colleagues [] estimated that 27.5% to 33.6% of Y chromosomes in African Americans are of European origin, compared with 9.0% to 15.4% of mtDNA haplotypes.

One study of nine short tandem repeat (STR) loci compared the Y chromosomes of African Americans with those of various African populations, including West Africans, West Central Africans (Cameroon), South Africans, Mbuti Pygmies, Mali, San, and Ethiopians []. In a multiple dimensional scaling analysis, these authors placed the African Americans in the middle of these African groups, suggesting origins from multiple African populations. However, they also found that they could not differentiate the Y-chromosome distributions of West African and West Central African groups, presumably a major source of ancestry for African Americans.

Another study of mtDNA haplotypes in African Americans and different African populations found that more than 50% of the African-American mtDNAs exactly matched common haplotypes shared among multiple African ethnic groups, whereas 40% matched no sequences in the African database they referenced []. Fewer than 10% of African-American mtDNA haplotypes matched exactly to a single African ethnic group. The haplotypes that did match were more often found in ethnic groups of West African or Central West African than of East or South African origin.

The most extensive examination of mtDNA haplotypes in Africans and African Americans [] used mtDNA data from a large number of African ethnic groups spread around the continent. These authors observed large similarities in mtDNA profiles among ethnic groups from West, Central West, and South West Africa, with a continuous geographic gradient. As observed previously [], these authors also found that many mtDNA haplotypes were widely distributed across Africa, making it impossible to trace African ancestry to a particular region or group, based on mtDNA data alone. These authors also estimated the proportionate ancestry within Africa based on African American mtDNA haplotypes as 60% from West Africa, 9% from Central West Africa, 30% from South West Africa, and minimal ancestry from North, East, Southeast, or South Africa.

These studies all suggest close genetic kinship among various West African, Central West African, and South West African ethnic groups. A prior analysis of genetic structure among the African populations included in the HGDP based on 377 autosomal STR loci was able to define distinct genetic clusters for the Biaka, Mbuti, and San; however, the study lacked the power to differentiate the Mandenka, Yoruba, and Bantu groups []. Similarly, another study examining two ethnic groups from Ghana (Akan and Gaa-Adangbe) and two from Nigeria (Yoruba, Igbo), based on 372 autosomal microsatellite markers in 493 individuals, did not differentiate these groups by genetic cluster analysis and found only modest genetic differences between them []. In contrast, greater resolution of African ethnic groups, particularly for the Mandenka and Yoruba, was possible in our analysis, based on more than 450,000 SNPs. We note that, in a recent study of malaria, PCA distinguished the HapMap YRI individuals from the Mandenka individuals in the Gambian sample on the basis of 100,715 SNPs; however, admixture analysis with a few selected markers did not reveal clear clusters that correspond to self-reported ancestry [].

It is of interest to compare our African admixture estimates to descriptions of proportional representation of various African groups to the Middle Passage and slave trade occurring in post-Columbian America. A highly detailed census based on historic records has been documented by several authors []. Africans were deported from numerous locations along the broad western coast of Africa, ranging from Senegal in the far west all the way down to Angola in the southwest. In addition, a smaller number of slaves were taken from the southeast of Africa. In terms of numbers, the largest group, approximately 50% to 60%, derived from Central and Southern West Africa and the Bight of Biafra; approximately 10% from Western Africa; 25% to 35% from the West Coast in between (Windward Coast, Gold Coast, and Bight of Benin), and the remaining 5% from Southeast Africa []. These estimates show considerable consistency with our results, which also indicated the largest ancestral component of African Americans to be from Central West Africa, followed by West Africa and Southwest Africa. However, because we did not have groups representative of Southeastern and other parts of Southern Africa, we may have underestimated their ancestral representation among African Americans.

It is important to note that considerable migration has occurred among African ethnic groups over the past three millennia or more. For example, the two Bantu groups included in our analysis originated from a more-central African location (Nigeria-Cameroon) several millennia ago, making precise geographic localization of African ancestry difficult []. This difficulty is also reflected in the close genetic relationships among the various West, West Central, and South West African groups, who also show considerable overlap in terms of mtDNA haplotypes.

Our results are based on examination of the entire autosomal genome and, therefore, provide a more-robust picture of the admixed African ancestry of individual African Americans compared with prior analyses, which focused on only a single locus (mtDNA or Y chromosome). We found all African Americans in our sample to be admixed, with representation from various geographic regions of Western Africa. The amount of variation in the African components of ancestry among the African Americans was quite modest, suggesting considerable similarity in African genetic profiles among African Americans. Thus, African ancestry testing based on a single locus, such as the mtDNA or Y chromosome, as is commonly done by ancestry-testing companies, provides only a very limited, and in many cases, misleading picture of an individual’s African ancestry [].

An important limitation in our analysis is the modest number of African subjects and groups represented. However, we were clearly able to exclude certain African ethnic groups as contributing substantially to African Americans, such as the two Pygmy and San groups. Furthermore, the close genetic similarity observed among West, Central West, and Southwest African ethnic groups (such as the Mandenka, Yoruba, and Bantu), found by us and others [], suggests that precise identification of ancestry for African Americans may be difficult, even with the inclusion of additional ethnic groups.

Very recently, the limited range of African groups included in population genetic studies of Africans was addressed in a landmark study of 113 geographically diverse African ethnic groups by Tishkoff and co-workers []. These authors included 848 microsatellite, 476 indel, and four SNP markers. to examine genetic structure among these groups, as well as among 98 African Americans from four U.S. recruitment sites. In a genetic cluster analysis, they found only modest differentiation among West Africans, similar to the findings from other studies of a subset of these groups, based on a comparable number of markers. They also estimated proportionate African ancestry among their African Americans in a structured analysis including African ethnic subgroups, allowing the African Americans to be admixed. Comparable to our results, within the African Americans, they also found the majority African ancestry to be West, Central West, and Southwest African, including Bantu and non-Bantu speakers, with somewhat greater representation of the Bantu speakers (about 50% of the African total component) than the Western non-Bantu speakers (for example, Mandenka, about 30% of the African total component). Larger collections of indigenous African populations, such as those described earlier [], when assayed with dense genotyping arrays, as done in this study (to allow finer genetic differentiation), will likely add further clarification of the African ancestral origins of African Americans.

The results of our analysis also strongly point to random mating among African Americans with respect to the African components of their ancestry. This is reflected both by the modest variances we observed in the African IA components, and also by the lack of structure in the PC analysis of African Americans with non-African genotypes removed. This conclusion is consistent with the idea that, for most African Americans, specific African origins are mixed or unknown or both and do not affect social characteristics that influence the choice of mate. It is also consistent with the notion that the African slaves brought to North America were mixed with regard to their geographic and ethnic ancestry and language []. By contrast, considerably greater variation in the proportion of European ancestry was found within the African Americans in our study. This high level of variation in European ancestry may reflect recent admixture or nonrandom mating (for example, as seen in Latino populations []), or both; these questions require additional study.

Conclusions

African Americans typically have African and European genetic ancestry. We sought to characterize the African ancestry of African Americans by using data on more than 450,000 SNPs genotyped in 94 Africans of diverse geographic origins, as well as 136 African Americans and 38 U.S. Caucasians. To focus on African ancestry, we reduced the data to include only those genotypes in each African American that are African in origin. We found that all the African Americans are admixed in the African component of their ancestry, with estimated contributions of 19% West (for example, Mandenka), 63% West Central (for example, Yoruba), and 14% South West Central or Eastern (for example, Bantu speakers), with little variation among individuals. Furthermore, we found little evidence of genetic structure within the African component of ancestry in African Americans, but significant structure related to the proportion of European ancestry. These results are consistent with mating patterns among African Americans that are unrelated to African ancestral origins, cast doubt on the general utility of mtDNA or Y-chromosome markers alone to delineate the full African ancestry of African Americans, and show that the proportion of European ancestry is the leading source of stratification bias in genetic case-control studies of African Americans.

Materials and methods

Selection of populations and individuals

Individuals included in analyses presented here come from two studies. A total of 102 indigenous African individuals and their genotype data were obtained from the Human Genome Diversity Project (HGDP) and comprised five San, 22 Biaka Pygmy, 13 Mbuti Pygmy, 22 Mandenka, 21 Yoruba, 11 Kenyan Bantu, and eight Southwest African Bantu (one Pedi, one Southern Sotho, two Tswana, one Zulu, two Herero, and one Ovambo). In total, eight individuals were removed from analyses for the following reasons: three Kenyan Bantu had significant Middle Eastern ancestry, based on previous analysis []; and three additional Kenyan Bantu and two Mandenka were removed because they were first cousins to other included subjects. This left a total of 94 indigenous Africans for analysis. The 136 self-described African-American individuals studied represent a subset of participants of the Atherosclerosis, Vascular Function and Genetic Epidemiology (ADVANCE) study [] selected for genotyping in the context of a GWA case-control study of early-onset coronary artery disease (CAD). From the ADVANCE study, we also randomly sampled 38 of 590 US Caucasians to anchor the European component of African-American ancestry. Thus, in total, 268 individuals are included in this study.

All ADVANCE subjects were recruited from the membership of Kaiser Permanente of Northern California. Among the 136 African Americans, 49 (36%) were affected with CAD (with first presentation at younger than 45 year for male and 55 years for female subjects), and 36 (26.4%) were male subjects. Of the 87 controls, frequency matched by age to the cases, 58 represented participants in the Coronary Artery Risk Development in Young Adults (CARDIA) study originally recruited at the Kaiser Oakland field center who attended the study’s Year 15 examination in 2000 to 2001 [,]. For 76 (55.9%) of these African-American individuals, we had information on state of birth, with 58 stating they were born in the West (California), 12 in the South (Alabama, Louisiana, Mississippi, Virginia), four in the Midwest (Indiana, Michigan, Missouri, Ohio), and two in the Southwest (Texas). The description of recruitment of these subjects can be found elsewhere [].

Genotyping and marker selection

Genotype data were derived from two different research projects. The HGDP individuals were genotyped on the Illumina 650 K Beadarray; experimental protocol and SNP quality-control analysis for the HGDP project and genotyping results were described previously [,]. In total, 938 individuals and 642,690 autosomal SNPs passed all quality-control criteria. Genotype data for U.S. African American and Caucasian individuals were obtained from the ADVANCE study, in which genotyping was performed on the Illumina 550 K Beadarray by the same group of investigators, followed by identical quality-control analysis. After removing markers that were absent from either the HGDP dataset or the ADVANCE dataset, the final combined genotype dataset for all analyses in this study consisted of 454,132 autosomal SNPs.

Population structure and ancestry estimation

We performed PCAs according to the algorithm described by []. Genome-wide European admixture proportions in African-American individuals were estimated by using the program frappe, which implements an Estimation-Maximization (EM) algorithm for simultaneously inferring each individual’s ancestry proportion and allele frequencies in the ancestral populations []. In this analysis, ancestry of the African Americans is allowed to have come from any of the K = 7 ancestral populations: San, Biaka Pygmy, Mbuti Pygmy, Mandenka, Yoruba, Bantu, or European. Ancestries of the indigenous African individuals and U.S. Caucasians were assumed to be homogeneous and fixed. However, to determine the robustness of these assignments for the closely related West and Central West African populations, we performed an additional frappe analysis on just these groups (Mandenka, Yoruba, Bantu; n = 57). We fixed all individuals in their respective population groups (Mandenka, Yoruba, or Bantu), except for one, who was allowed to be admixed, and the admixture was estimated. This procedure was repeated 57 times for each individual, so that each person’s potential admixture was estimated. In this way, we tested the robustness of the population definitions. If the populations are not distinct, then the individual admixture estimates should appear random; by contrast, if an individual’s ancestry is assigned primarily to his or her population of origin, population distinctiveness can be assumed. Furthermore, this analysis provides a closely matched contrast to the African Americans, whose proportionate individual ancestry is estimated in a similar fashion.

Defining African SNP genotypes

To focus exclusively on the African ancestral component, we removed genotypes containing European-derived alleles from the African-American individuals by using the program saber. This program allowed us to infer European versus African ancestry for each SNP genotype in an individual []. Saber implements a Markov-Hidden Markov Model, which infers locus-specific ancestry based on ancestral allele frequencies at each marker, as well as the ancestral haplotype frequencies between pairs of neighboring markers and assumes a block structure for ancestry along a chromosome. For this analysis, saber required the genome-wide average European ancestry for each admixed individual, which was estimated by using frappe, as described earlier (K = 7). We also supplied the estimated African and European ancestral allele frequencies for all SNPs to saber, which improved the estimation of the ancestral haplotype frequencies. Saber produces a posterior estimate of European ancestry at each SNP, which concentrates near 0, 0.5 and 1, corresponding to 0, 1, or 2 European-derived alleles. Although it is feasible to infer phase and ancestry jointly by using saber, we chose to remove SNP genotypes (as opposed to single alleles) in which at least one allele is European derived. Thus, for a given individual, we were left only with SNP genotypes that were highly likely to be homozygous in African origin. The proportion of genotypes removed for an individual is approximately 1 – α2, where α represents the genome-wide estimate of African ancestry for that individual. As a result, the amount of genotype data varied among individuals based on the degree of European versus African ancestry. To allow adequate information about the African component of their genome, we excluded eight individuals with estimated European ancestry of 45% or greater, leaving a total sample of 128 individuals with at least 30% of their genotype data retained. The proportion of genotypes retained ranged from 31% to 99%, with a median of 67% and mean of 66%. In terms of proportion of genotypes retained at individual loci, the mean is the same as stated earlier (66%), with a standard deviation of 0.05. Thus, assuming a normal distribution, 95% of the proportions of genotypes retained across loci lie between 56% and 77%. We note that even after removing genotypes, a large number of marker genotypes are retained for each individual, with a minimum of 143,025.

Genetic structure of the African-derived genome

This analysis focused on IA estimation and PCA based on African-origin SNP genotypes. For IA estimation, we used the program frappe with K = 7 (Yoruba, Mandenka, Bantu, Biaka Pygmy, Mbuti Pygmy, San, and U.S. Caucasians as ancestral individuals). U.S. Caucasians were included in the model to ensure that the European ancestral component had been properly removed from all individuals.

In performing PCA of the Africans and African Americans together, our goal was to understand the relationship between African Americans and Africans. We focused on the 57 West and Central West Africans in this analysis (Yoruba, Mandenka, and Bantu) because these were the only African populations contributing to African-American ancestry. In this case, a standard PCA would be influenced by the much larger sample size of African Americans compared with any of the African groups. Because we were interested in the projection of the African component of ancestry of the African Americans onto the African structure, we instead performed the PCA 128 times, each time including a different single African American whose non-African genotypes had been removed.

In PCAs involving U.S. Caucasian subjects, the same 38 ADVANCE Caucasians were used. All PCAs were performed by using the statistical package R.

To address the question of whether removal of a varying amount of genotype data among individuals would bias the PC analysis, we performed a genotype-reduction procedure on the 94 indigenous African populations, to mimic the reduction of genotype data among the African Americans. We then performed two PCAs, the first based on complete genotype information, and then another based on the reduced genotype data. Significant differences between the results of these analyses would indicate that some bias occurs simply because of the uneven data reduction; lack of differences would indicate the opposite.

Abbreviations

ADVANCE: Atherosclerotic Disease Vascular Function and Genetic Epidemiology; AIM: ancestry informative marker; CAD: coronary artery disease; CARDIA: Coronary Artery Risk Development in Young Adults; EM: estimation-maximization; GWA: genome-wide association; HGDP: Human Genome Diversity Panel; IA: individual ancestry; PC: principal component; PCA: principal component analysis; SNP: single nucleotide polymorphism; STR: short tandem repeat.

Authors’ contributions

FZ, HT, and NR conceived of the study, performed the statistical analyses, and drafted the manuscript. AB, DA, and BN contributed to the data analyses. TQ, TLA, JWK, CI, ASG, MAH, and SS are ADVANCE investigators and had the overall responsibility for study design and implementation, including subject recruitment and assessment. RRM, DA, JL, and AS generated high-density SNP genotype data on ADVANCE. All authors contributed to and approved of the manuscript.

Additional files

The following additional files for this article are available online:

Additional file 1 contains three supplementary figures. Figure S1 shows PC1 from PCA of African Americans based on all genotype data versus African IA from frappe analysis. The figure shows near-perfect correlation between PC1 and African IA. Figure S2 shows a Frappe analysis of 57 Yoruba, Mandenka, and Bantu speakers, based on estimating admixed ancestry one individual at a time, fixing all others in their defined population. Results show majority assignment to an individual’s own population group. Figure S3a shows a PCA of indigenous Africans (n = 94) based on all genotype data. Figure S3b shows a PCA of indigenous Africans (n = 94) based on variable removal of genotype data. Note that the figure shows nearly identical genetic structure to that in Figure Figure3a,3a, including the separation of Yoruba, Mandenka, and Bantu.

 

Supplementary Material

Additional data file 1:

Figure S1 shows PC1 from PCA of African Americans based on all genotype data versus African IA from frappe analysis. The figure shows near-perfect correlation between PC1 and African IA. Figure S2 shows a Frappe analysis of 57 Yoruba, Mandenka, and Bantu speakers, based on estimating admixed ancestry one individual at a time, fixing all others in their defined population. Results show majority assignment to an individual’s own population group. Figure S3a shows a PCA of indigenous Africans (n = 94) based on all genotype data. Figure S3b shows a PCA of indigenous Africans (n = 94) based on variable removal of genotype data. Note that the figure shows nearly identical genetic structure to that in Figure Figure3a,3a, including the separation of Yoruba, Mandenka, and Bantu.

Acknowledgements

We thank Dr. Sandra Beleza for helpful comments on the manuscript. This research was supported by the National Institutes of Health, including NIGMS grant GM073059 (to HT), and NHLBI grant HL087647 (to TQ). FZ was supported by a Stanford Graduate Fellowship. HT is supported by a Sloan Foundation Research Fellowship. The ADVANCE investigators thank the study participants and the staff who contributed to the ADVANCE study.

References

  • Tang H, Jorgenson E, Gadde M, Kardia SL, Rao DC, Zhu X, Schork NJ, Hanis CL, Risch N. Racial admixture and its impact on BMI and blood pressure in African and Mexican Americans. Hum Genet. 2006;119:624–633. doi: 10.1007/s00439-006-0175-4. [PubMed] [Cross Ref]
  • Fernandez JR, Shriver MD, Beasley TM, Rafla-Demetrious N, Parra E, Albu J, Nicklas B, Ryan AS, McKeigue PM, Hoggart CL, Weinsier RL, Allison DB. Association of African genetic admixture with resting metabolic rate and obesity among women. Obes Res. 2003;11:904–911. doi: 10.1038/oby.2003.124. [PubMed][Cross Ref]
  • Parra EJ, Marcini A, Akey J, Martinson J, Batzer MA, Cooper R, Forrester T, Allison DB, Deka R, Ferrell RE, Shriver MD. Estimating African American admixture proportions by use of population-specific alleles. Am J Hum Genet. 1998;63:1839–1851. doi: 10.1086/302148. [PMC free article] [PubMed] [Cross Ref]
  • Tishkoff SA, Reed FA, Friedlaender FR, Ehret C, Ranciaro A, Froment A, Hirbo JB, Awomoyi AA, Bodo JM, Doumbo O, Ibrahim M, Juma AT, Kotze MJ, Lema G, Moore JH, Mortensen H, Nyambo TB, Omar SA, Powell K, Pretorius GS, Smith MW, Thera MA, Wambebe C, Weber JL, Williams SM. The genetic structure and history of Africans and African Americans. Science. 2009;324:1035–1044. doi: 10.1126/science.1172257. [PMC free article] [PubMed] [Cross Ref]
  • Coelho M, Sequeira F, Luiselli D, Beleza S, Rocha J. On the edge of Bantu expansions: mtDNA, Y chromosome and lactase persistence genetic variation in southwestern Angola. BMC Evol Biol. 2009;9:80. doi: 10.1186/1471-2148-9-80.[PMC free article] [PubMed] [Cross Ref]
  • Kayser M, Brauer S, Schadlich H, Prinz M, Batzer MA, Zimmerman PA, Boatin BA, Stoneking M. Y chromosome STR haplotypes and the genetic structure of U.S. populations of African, European, and Hispanic ancestry. Genome Res. 2003;13:624–634. doi: 10.1101/gr.463003. [PMC free article] [PubMed] [Cross Ref]
  • Lind JM, Hutcheson-Dilks HB, Williams SM, Moore JH, Essex M, Ruiz-Pesini E, Wallace DC, Tishkoff SA, O’Brien SJ, Smith MW. Elevated male European and female African contributions to the genomes of African American individuals. Hum Genet. 2007;120:713–722. doi: 10.1007/s00439-006-0261-7. [PubMed] [Cross Ref]
  • Segal R. The Black Diaspora: Five Centuries of Black Experience Outside Africa.New York: Farrar, Straus and Giroux; 1995.
  • Thomas H. The Slave Trade: The Story of the Atlantic Slave Trade: 1440-1870.Simon & Schuster; 1999.
  • Curtin PD. The Atlantic Slave Trade. Milwaukie, Wisconsin: University of Wisconsin Press; 1969.
  • Lovejoy PE. Transformations in Slavery: A History of Slavery in Africa. 2. Cambridge: Cambridge University Press; 2000.
  • Eltis D. The volume and structure of the transatlantic slave trade: a reassessment. William Mary Q. 2001;58:17–46. [PubMed]
  • Salas A, Carracedo A, Richards M, Macaulay V. Charting the ancestry of African Americans. Am J Hum Genet. 2005;77:676–680. doi: 10.1086/491675.[PMC free article] [PubMed] [Cross Ref]
  • Tang H, Choudhry S, Mei R, Morgan M, Rodriguez-Cintron W, Burchard EG, Risch NJ. Recent genetic selection in the ancestral admixture of Puerto Ricans. Am J Hum Genet. 2007;81:626–633. doi: 10.1086/520769. [PMC free article] [PubMed][Cross Ref]
  • Nalls MA, Wilson JG, Patterson NJ, Tandon A, Zmuda JM, Huntsman S, Garcia M, Hu D, Li R, Beamer BA, Patel KV, Akylbekova EL, Files JC, Hardy CL, Buxbaum SG, Taylor HA, Reich D, Harris TB, Ziv E. Admixture mapping of white cell count: genetic locus responsible for lower white blood cell count in the Health ABC and Jackson Heart studies. Am J Hum Genet. 2008;82:81–87. doi: 10.1016/j.ajhg.2007.09.003. [PMC free article] [PubMed] [Cross Ref]
  • Jimenez-Sanchez G, Silva-Zolezzi I, Hidalgo A, March S. Genomic medicine in Mexico: initial steps and the road ahead. Genome Res. 2008;18:1191–1198. doi: 10.1101/gr.065359.107. [PubMed] [Cross Ref]
  • Jakobsson M, Scholz SW, Scheet P, Gibbs JR, VanLiere JM, Fung HC, Szpiech ZA, Degnan JH, Wang K, Guerreiro R, Bras JM, Schymick JC, Hernandez DB, Traynor BJ, Simon-Sanchez J, Matarin M, Britton A, Leemput J van de, Rafferty I, Bucan M, Cann HM, Hardy JA, Rosenberg NA, Singleton AB. Genotype, haplotype and copy-number variation in worldwide human populations. Nature. 2008;451:998–1003. doi: 10.1038/nature06742. [PubMed] [Cross Ref]
  • Li JZ, Absher DM, Tang H, Southwick AM, Casto AM, Ramachandran S, Cann HM, Barsh GS, Feldman M, Cavalli-Sforza LL, Myers RM. Worldwide human relationships inferred from genome-wide patterns of variation. Science. 2008;319:1100–1104. [PubMed]
  • Assimes TL, Knowles JW, Basu A, Iribarren C, Southwick A, Tang H, Absher D, Li J, Fair JM, Rubin GD, Sidney S, Fortmann SP, Go AS, Hlatky MA, Myers RM, Risch N, Quertermous T. Susceptibility locus for clinical and subclinical coronary artery disease at chromosome 9p21 in the multi-ethnic ADVANCE study. Hum Mol Genet. 2008;17:2320–2328. doi: 10.1093/hmg/ddn132. [PMC free article] [PubMed][Cross Ref]
  • Tang H, Coram M, Wang P, Zhu X, Risch N. Reconstructing genetic ancestry blocks in admixed individuals. Am J Hum Genet. 2006;79:1–12. doi: 10.1086/504302.[PMC free article] [PubMed] [Cross Ref]
  • Tang H, Peng J, Wang P, Risch NJ. Estimation of individual admixture: analytical and study design considerations. Genet Epidemiol. 2005;28:289–301. doi: 10.1002/gepi.20064. [PubMed] [Cross Ref]
  • Reiner AP, Carlson CS, Ziv E, Iribarren C, Jaquish CE, Nickerson DA. Genetic ancestry, population sub-structure, and cardiovascular disease-related traits among African-American participants in the CARDIA study. Hum Genet. 2007;121:565–575. doi: 10.1007/s00439-007-0350-2. [PubMed] [Cross Ref]
  • Reich D, Price AL, Patterson N. Principal component analysis of genetic data. Nat Genet. 2008;40:491–492. doi: 10.1038/ng0508-491. [PubMed] [Cross Ref]
  • Ehret C, Posnansky M, eds. The Archaeological and Linguistic Reconstruction of African History. Berkeley: University of California Press; 1982.
  • Salas A, Richards M, De la Fe T, Lareu MV, Sobrino B, Sanchez-Diz P, Macaulay V, Carracedo A. The making of the African mtDNA landscape. Am J Hum Genet. 2002;71:1082–1111. doi: 10.1086/344348. [PMC free article] [PubMed] [Cross Ref]
  • Ely B, Wilson JL, Jackson F, Jackson BA. African-American mitochondrial DNAs often match mtDNAs found in multiple African ethnic groups. BMC Biol. 2006;4:34. doi: 10.1186/1741-7007-4-34. [PMC free article] [PubMed] [Cross Ref]
  • Rosenberg NA, Pritchard JK, Weber JL, Cann HM, Kidd KK, Zhivotovsky LA, Feldman MW. Genetic structure of human populations. Science. 2002;298:2381–2385. doi: 10.1126/science.1078311. [PubMed] [Cross Ref]
  • Adeyemo AA, Chen G, Chen Y, Rotimi C. Genetic structure in four West African population groups. BMC Genet. 2005;6:38. doi: 10.1186/1471-2156-6-38.[PMC free article] [PubMed] [Cross Ref]
  • Jallow M, Teo YY, Small KS, Rockett KA, Deloukas P, Clark TG, Kivinen K, Bojang KA, Conway DJ, Pinder M, Sirugo G, Sisay-Joof F, Usen S, Auburn S, Bumpstead SJ, Campino S, Coffey A, Dunham A, Fry AE, Green A, Gwilliam R, Hunt SE, Inouye M, Jeffreys AE, Mendy A, Palotie A, Potter S, Ragoussis J, Rogers J, Rowlands K. Genome-wide and fine-resolution association analysis of malaria in West Africa. Nat Genet. in press . [PMC free article] [PubMed]
  • Vansina J. New linguistic evidence and “the Bantu expansion”. J African Hist. 1995;36:173–195. doi: 10.1017/S0021853700034101. [Cross Ref]
  • Shriver MD, Kittles RA. Genetic ancestry and the search for personalized genetic histories. Nat Rev Genet. 2004;5:611–618. doi: 10.1038/nrg1405. [PubMed][Cross Ref]
  • Morgan PD. In: Routes to Slavery: Direction, Ethnicity and Mortality in the Atlantic Slave Trade. Eltis D, Richardson D, editor. London: Routledge; 1997. The cultural implications of the Atlantic slave trade: African regional origins, American destinations and new world developments. pp. 122–145.
  • Risch N, Choudhry S, Via M, Basu A, Sebro R, Eng C, Beckman K, Thyne S, Chapela R, Rodriguez-Santana JR, Rodriguez-Cintron W, Avila PC, Ziv E, Burchard EG. Ancestry-related assortative mating in Latino populations. Genome Biol. 2009;10:R132. doi: 10.1186/gb-2009-10-11-r132. [PMC free article] [PubMed][Cross Ref]
  • Lee CD, Jacobs DR Jr, Hankinson A, Iribarren C, Sidney S. Cardiorespiratory fitness and coronary artery calcification in young adults: the CARDIA study. Atherosclerosis. 2008;203:263–268. doi: 10.1016/j.atherosclerosis.2008.06.012.[PMC free article] [PubMed] [Cross Ref]
  • Iribarren C, Go AS, Husson G, Sidney S, Fair JM, Quertermous T, Hlatky MA, Fortmann SP. Metabolic syndrome and early-onset coronary artery disease: is the whole greater than its parts? J Am Coll Cardiol. 2006;48:1800–1807. doi: 10.1016/j.jacc.2006.03.070. [PubMed] [Cross Ref]
  • Price AL, Patterson NJ, Plenge RM, Weinblatt ME, Shadick NA, Reich D. Principal components analysis corrects for stratification in genome-wide association studies. Nat Genet. 2006;38:904–909. doi: 10.1038/ng1847. [PubMed] [Cross Ref]

Articles from Genome Biology are provided here courtesy of BioMed Central

Formats:

    • Article

|

|

|

|

Recent Activity

See more…

DNADNA Visualization

Source: https://dnadna.uk/

This dna visualization was created by Mike Toogood in the UK. Still working on the software for my own genealogy. Enjoy!

Join the dots today!

Visualise your DNA Match Relationships Easily and Quickly

easy web creator
  • FREE TO USE – DNADNA is free to use – copyright reserved
  • EASY AND SIMPLE – ‘Ever played join the dots … you can use visualisation.
  • ARTISTIC – The pictures you produce are pleasing – there is no right or wrong way.
  • MEANINGFULNESS – Layout the information in a way that looks meaningful to you.

    What is DNADNA?

    Join the dots for grown up Genealogists!

    best free website builder
    • A VISUALISATION SYSTEM  Network Analysis pictures can be used to understand complex systems.
    • NET GRAPHS ARE IDEAL  Understand links between distant DNA cousins.
    • A DATA PRE PROCESSOR  DNADNA uses logic and simple rules to prune and select the most genealogically relevant bits from the vast amount of data that is now available as more people DNA test.
    • MATERNAL/PATERNAL/BOTH INFERENCE ENGINE  DNADNA can infer likely relationships from known ones and color your graph accordingly.

 

 

Gen-Fed Program 2018 Released

Gen-Fed Program for 2018 Released

David S. Ferriero, Archivist of the United States, gives welcoming remarks to begin week-long Gen-Fed at the National Archives in Washington, DC, on July 10, 2017.

The Genealogical Institute on Federal Records has announced its 2018 list of lecturers and topics for the week-long course to be held at the National Archives in Washington, D.C., and College Park, Maryland, from July 16–20, 2018. Among those presenting are NARA staff members (current and retired), and expert genealogists, researchers, and historians from a variety of backgrounds. The Innovation Hub at NARA-DC, on Pennsylvania Avenue, located within the Robert M. Warner Research Center on the first floor, offers proximity to archivists and records and serves as the institute’s home base.

Records from all three branches of governments will be studied during the institute—legislative, executive, and judicial. The program’s opening day immerses attendees in multiple strategies for on-site and remote research with lectures focused on solving genealogical problems scheduled later in the week. Informal access to reference archivists, a hallmark of the institute, has been expanded.

Although NARA is now closed on Saturdays, longer hours on Monday through Friday result in more time for research during the week. An orientation to genealogical research at the Library of Congress on Monday evening prepares attendees to take advantage of LC evening hours throughout the week. On Saturday, July 21, participants may attend an orientation at the Daughters of the America Revolution (DAR) Library and spend a full day exploring one of the top genealogical libraries in the country.

Online registration for the 2018 Genealogical Institute on Federal Records will open on Saturday, February 24, at 1:00 PM EST. Details on registration will be released on Thursday, February 15th. For more information on the institute and its history, visit www.gen-fed.org.

A Federal Family Tree and Finding Your Way in Federal Records
        —Malissa Ruffner, JD, CG, Director, Gen-Fed
Retrieval Workshop: Getting the Pull Slips Right
       Debra A. Hoffman, Assistant Director, Gen-Fed
Using the National Archives Catalog for Genealogical Research
       Suzanne Isaacs and Meredith Doviak, NARA
NARA’s Records, Coast to Coast
       Trevor Plante, NARA
Introduction to Local History and Genealogy, Main Reading Room, Library of Congress (LC) (at LC)
       — James Sweany, MSLS
Basic Military Records and Pension Records
       Jonathan Webb Deiss, Military Research Specialist, soldiersource.com
Immigration & Nationality: Beyond the Basic Documents, Part I and Part II
       Marian Smith, Historian, United States Customs and Immigration Service (USCIS)
Mining Land Entry Records for Family History and Reward for Service: Bounty Land Records
       Angela McGhie, CG, genealogist, lecturer, blogger, and course coordinator of courses at Salt Lake Institute of Genealogy (SLIG) and Institute of Genealogy and Historical Research (IGHR)
Blasting Brick Walls with Legislative Records and Unique Map Holdings of NARA
       — Rick Sayre, CG, CGL, FUGA, genealogist, course coordinator at SLIG and Genealogical Institute of Pittsburgh (GRIP)
State Department Correspondence Case Study
       Kenneth W. Heger, PhD, NARA (retired)
Using Federal Records to Explore Native American Ancestry
       Angela Walton-Raji, genealogist, author, founding member of AfriGeneas.com and the Midwest African-American Genealogy Institute (MAGGI)
Overcoming African American Research Challenges with Federal Records
—LaBrenda Garrett-Nelson, JD, LLM, CG, genealogist, author of A Guide to Researching African American Ancestors in Laurens County, South Carolina, and course coordinator at SLIG (2019) 
Court Records: Making a Federal Case Out of It
 and Spread the Word: More Family in Federal Records
       Judy G. Russell, JD, CG, CGL ,“The Legal Genealogist”
Introduction to the Daughters of the America Revolution (DAR) Library (at DAR)
       —Darryn Lickliter, MLIS

CG and CGL are proprietary marks of the Board for Certification of Genealogists®, used under license by board certificants after periodic evaluation.

 

 

Black and White Southern Families in Antebellum Plantation Records

 

 

The North Carolina Genealogy Society Proudly Presents… “Black and White Southern Families in Antebellum Plantation Records” featuring Ari Wilkins
The North Carolina Genealogical Society, Inc.

North Carolina Genealogical Society

The North Carolina Genealogical Society is delighted to present:
Ari Wilkins“Black and White Southern Families in Antebellum Plantation Records”
A LIVE webinar on 7 March 2018, 7:00 pm – 8:00 pm EST

This live webinar is available to NCGS members only. You must be logged in to access registration.The handout for this presentation will be posted on the NCGS website at least one week prior to the webinar. On the top menu, under Education & Events, select Webinars to go to the main webinars page. The box at the top right of that page has a link to “Member Webinar Handouts”, which is arranged in alphabetical order.

About the Webinar:

The Southern Antebellum Plantation Records are an invaluable resource to Southern and African American researchers. This extensive collection encompasses business and personal papers from numerous slaveholding families of the South. For white Southern families, the collection can uncover decades of genealogical history along with details such as the dynamics of personal relationships, communication, and the entanglements of associated families. For African American research, these records can potentially list enslaved persons by name and include other significant information such as family relationships, dates of birth and death, and bills of sale.
This presentation will demonstrate the breadth of the collection, how to navigate and apply the records to personal research.

About the Speaker:
Ari Wilkins photo   Ari Wilkins, a graduate of Louisiana State University, has been actively researching family history since 1998. Ari worked with the esteemed genealogist, Dr. James Rose, for many years on his final project Generations: The WPA Ex-Slave Narrative Database. She is the owner of the genealogical consulting company, Black Genesis. Ms. Wilkins also works as a contributor for Proquest’s African American Heritage database.
Ms. Wilkins has spoken nationally at the National Genealogical Society, Federation of Genealogical Societies, Texas State Genealogical Society, Ohio Genealogical Society, Samford Institute of Genealogical and Historical Research, American Library Association, and a multitude of local societies.
Ari has been a Library Associate at Dallas Public Library since 2007. She teaches a series of basic research classes using popular genealogical websites. She specializes in African American research.

To register for the live webinar, look under Upcoming Events on the NCGS home page. You will need to log in as a member in order to register.

After registering, you will receive a confirmation email containing information about joining the webinar.
This event is sponsored through GoToWebinar, and will be viewable via the link sent to you after registration. It will not be on the NCGS web site. After registering you will receive a confirmation email containing information about joining the Webinar. If you use an email program that uses Sender Lists to allow receipt of email, especially Earthlink or Mindspring, you may need to add @ncgenealogy.org to your list of “approved senders” to receive email from NCGS. Remember to include the @ in front of ncgenealogy!
Webinar Viewing Options
  • Live webinars, the post-webinar Q&A sessions, and the accompanying handouts are free for NCGS members.
  • Recordings of the webinars are available to members within a few weeks of the live session.
  • A public replay of the webinar will occur on a future date that will be published on the website and in the NCGS News.

________________________________

 

Ken Trantham

Publicty Committee Chair

publicity@ncgenealogy.org

 

 

Copyright © 2018 North Carolina Genealogical Society, Inc., All rights reserved.

You have been added to this list because you are a member or former member of the North Carolina Genealogical Society, you have purchased one of our books or CDs, or you have attended one of our workshops.

Our mailing address is:

North Carolina Genealogical Society, Inc.

6300 Creedmoor Road, Ste 170-323

Raleigh, NC 27612

Add us to your address book

Email Marketing Powered by MailChimp

Manumission Records of Slaves in Jamaica

Manumission Records of Slaves in Jamaica

Resource: Genealogia Nuestra – Our Ancestors access 2/11/2018

One of the terms that many of us that descend from enslaved ancestors know is the word manumission.  Manumission is the term used when referencing the freedom of those that were enslaved. The term is used when individuals managed to attain their freedom, whether through the slaveholder freeing them or through the enslaved person purchasing their freedom or a family member do thing for them.

While many of us would like to find these records, it isn’t an easy task. It becomes harder for those of us who have ancestors that come from the Caribbean. Many records have been destroyed or lost due to fire, hurricanes, the humidity, and the insects that enjoy eating through the records.

Many times when books were found to be in poor condition, they would wind up being burned as trash. Preservation is not a priority when many face struggles in feeding their families and maintaining homes.

While records are disappearing, many have taken on the mission of preserving these records, which helps many in the genealogy world discover records that were not previously available to them. Many of these preservation projects are taken on via grants through universities around the globe.

One such project is based out of the United Kingdom but easily accessible in the USA. While the project has identified that there are 70 registers but the first 4 volumes are missing. The volumes that are available are Volumes 5 through 12, contain people who were manumitted in the following parishes across Jamaica covering the time period of 1747 through 1838:
  • Clarendon
  • Hanover
  • Kingston
  • Manchester
  • Port Royal
  • Portland
  • St. Andrew
  • St. Ann
  • St. Catherine
  • St. David
  • St. Dorothy
  • St. Elizabeth
  • St. George
  • St. James
  • St. Mary
  • St. Thomas in the East
  •  St. Thomas in the Vale
  • Trelawny
  • Vere
  • Westmoreland

The volumes are as follows and if browsing from a computer, they will open in a new tab:

Emancipation Park, Kingston, Jamaica

 

Manumission Records of Slaves in Jamaica

Michigan State University Grant to House a Massive Slave Trade Database

 

Published: Jan. 9, 2018

MSU USES $1.5M MELLON FOUNDATION GRANT TO BUILD MASSIVE SLAVE TRADE DATABASE

Contact(s): Andy Henion, Dean Rehberger, Walter Hawthorne, Ethan Watrall, Rebecca Jensen

Michigan State University, supported by nearly $1.5 million from The Andrew W. Mellon Foundation, will create a unique online data hub that will change the way scholars and the public understand African slavery.

By linking data collections from multiple universities, the website will allow people to search millions of pieces of slave data to identify enslaved individuals and their descendants from a central source. Users can also run analyses of enslaved populations and create maps, charts and graphics.

The project, called “Enslaved: The People of the Historic Slave Trade,” is funded by a $1.47 million grant from the Mellon Foundation.

“’Enslaved’ brings new digital tools and analytical approaches to the study of African slavery and the Atlantic slave trade,” said project co-investigator Walter Hawthorne, professor and chair of MSU’s Department of History. “By linking data compiled by some of the world’s foremost historians, it will allow scholars and the public to learn about individuals’ lives and to draw new, broad conclusions about processes that had an indelible impact on the world.”

Dean Rehberger, director of Matrix: The Center for Digital Humanities and Social Sciences at MSU, will lead the project along with Hawthorne and Ethan Watrall, associate director of Matrix and assistant professor of anthropology.

This project, which will take 18 months, is the first phase of a multi-phase plan. In phase one, MSU and partners will develop a proof-of-concept to show data can be linked across eight well-established online databases, including the collection at MSU’s Matrix.

In addition to Matrix – one of the premier digital humanities centers – MSU has the top-ranked African history graduate program in the nation, according to U.S. News & World Report.

“’Enslaved’ reaffirms Michigan State University’s longstanding commitment to Africa-centered research,” Watrall said, “and to creating tools and digital experiences that engage researchers, students and the public in critical questions about our collective past, culture and heritage.”

The partner projects in phase one are “African Origins and Voyages: The Trans-Atlantic Slave Trade Database” led by David Eltis, professor emeritus, Emory University, and Paul Lachance; “The Slave Societies Digital Archive” led by Jane Landers, Vanderbilt University; “Dictionary of Caribbean and Afro-Latin American Biography” and “Dictionary of African Biography and African American National Biography” led by Henry Louis Gates Jr., Steven Niven and Abby Wolf, Hutchins Center for African and African American Research at Harvard University; “Freedom Narratives” led by Paul Lovejoy, York University; “Legacies of British Slave-Ownership” led by Keith McClelland, University College, London; and “The Liberated Africans Project” led by Henry Lovejoy, University of Colorado Boulder; and “Slave Biographies” led by Daryle Williams, University of Maryland.

The funding follows a $19,450 Mellon grant for project planning.

“We and our partners value the support of the Mellon Foundation,” Rehberger said. “In bringing together data from a number of highly successful projects, we have the opportunity from many small threads of data to weave together lives of enslaved individuals once thought lost to history.”

%d bloggers like this: