Genetic variation and recent population history of the tropical garAtractosteus tropicusGill (Pisces: Lepisosteidae)

AbstractGenome sequences from diverse human groups are needed to understand the structure of genetic variation in our species and the history of, and relationships between, different populations. We present 929 high-coverage genome sequences from 54 diverse human populations, 26 of which are physically phased using linked-read sequencing. Analyses of these genomes reveal an excess of previously undocumented private genetic variation in southern and central Africa and in Oceania and the Americas, but an absence of fixed, private variants between major geographical regions. We also find deep and gradual population separations within Africa, contrasting population size histories between hunter-gatherer and agriculturalist groups in the last 10,000 years, a potentially major population growth episode after the peopling of the Americas, and a contrast between single Neanderthal but multiple Denisovan source populations contributing to present-day human populations. We also demonstrate benefits to the study of population relationships of genome sequences over ascertained array genotypes. These genome sequences are freely available as a resource with no access or analysis restrictions.

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Genetic diversity and biogeographic history inform future conservation management strategies for the rare sunset frog (Spicospina flammocaerulea)

Australian Journal of Zoology ◽

10.1071/zo11005 ◽

2011 ◽

Vol 59 (2) ◽

pp. 63 ◽

Cited By ~ 3

Author(s):

D. L. Edwards ◽

J. D. Roberts

Keyword(s):

Genetic Variation ◽

Gene Flow ◽

Western Australia ◽

Agricultural Landscape ◽

Management Strategies ◽

Population History ◽

Conservation Strategy ◽

Management Options ◽

Biogeographic History ◽

History Of

Outlining the distribution of genetic variation, patterns of gene flow and clarifying the biogeographic processes underlying population history are critical components of a comprehensive conservation strategy for endangered or vulnerable species. We provide this information for the vulnerable sunset frog (Spicospina flammocaerulea) using a comprehensive genetic dataset (ND2) with samples from 17 of 22 geographic localities where this species has been found. From genetic, biogeographic and coalescent-based analyses, we document the existing genetic variation, likely movement patterns and explore the biogeographic history of S. flammocaerulea. While catchment-based genetic variation is well documented in other high-rainfall taxa in south-western Australia, a much more complex scenario including dispersal across ridge lines between catchments better explains the distribution of genetic variation and observed patterns of gene flow in S. flammocaerulea. The population history of S. flammocaerulea is strongly indicative of recent population contraction and expansion, which may be related to late Pleistocene climate fluctuations. This suggests that this species can adapt or move in response to fluctuating climates provided suitable habitats or expansion areas are available. However, like many other endemic taxa with limited geographic ranges in south-western Australia, the potential to shift distributions is hampered by being land-locked within an agricultural landscape, limiting management options in the face of climate change.

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A population history of Tokelau – genetic variation and change in atoll populations

The Journal of Island and Coastal Archaeology ◽

10.1080/15564894.2021.1901805 ◽

2021 ◽

pp. 1-18

Author(s):

Anna L. Gosling ◽

Edana Lord ◽

James Boocock ◽

Sophia Cameron-Christie ◽

K. Ann Horsburgh ◽

...

Keyword(s):

Genetic Variation ◽

Population History ◽

History Of

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Genetic variation and population history of three Carassius auratus populations in Huaihe River, China

Mitochondrial DNA Part A ◽

10.3109/19401736.2015.1043543 ◽

2016 ◽

Vol 27 (6) ◽

pp. 4252-4255 ◽

Cited By ~ 1

Author(s):

Wei Chen ◽

Yuanjun Zhao ◽

Chengzhong Yang

Keyword(s):

Genetic Variation ◽

Carassius Auratus ◽

Population History ◽

Huaihe River ◽

History Of

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Insights into human genetic variation and population history from 929 diverse genomes

Science ◽

10.1126/science.aay5012 ◽

2020 ◽

Vol 367 (6484) ◽

pp. eaay5012 ◽

Cited By ~ 46

Author(s):

Anders Bergström ◽

Shane A. McCarthy ◽

Ruoyun Hui ◽

Mohamed A. Almarri ◽

Qasim Ayub ◽

...

Keyword(s):

Genetic Variation ◽

Central Africa ◽

Population History ◽

Human Populations ◽

Genome Sequences ◽

High Coverage ◽

Geographical Regions ◽

History Of ◽

Different Populations ◽

Source Populations

Genome sequences from diverse human groups are needed to understand the structure of genetic variation in our species and the history of, and relationships between, different populations. We present 929 high-coverage genome sequences from 54 diverse human populations, 26 of which are physically phased using linked-read sequencing. Analyses of these genomes reveal an excess of previously undocumented common genetic variation private to southern Africa, central Africa, Oceania, and the Americas, but an absence of such variants fixed between major geographical regions. We also find deep and gradual population separations within Africa, contrasting population size histories between hunter-gatherer and agriculturalist groups in the past 10,000 years, and a contrast between single Neanderthal but multiple Denisovan source populations contributing to present-day human populations.

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The Population History of Britain and Ireland 1500-1750

Population Studies ◽

10.1080/0032472031000149416 ◽

1996 ◽

Vol 50 (2) ◽

pp. 284-285

Author(s):

Eilidh Garrett

Keyword(s):

Population History ◽

History Of

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Population Genetics ofCaenorhabditis elegans: The Paradox of Low Polymorphism in a Widespread Species

Genetics ◽

10.1093/genetics/163.1.147 ◽

2003 ◽

Vol 163 (1) ◽

pp. 147-157 ◽

Cited By ~ 6

Author(s):

Arjun Sivasundar ◽

Jody Hey

Keyword(s):

Genetic Variation ◽

Microsatellite Loci ◽

Population Expansion ◽

Widespread Species ◽

C Elegans ◽

Model Research ◽

The World ◽

Natural Isolates ◽

History Of ◽

Low Levels

AbstractCaenorhabditis elegans has become one of the most widely used model research organisms, yet we have little information on evolutionary processes and recent evolutionary history of this widespread species. We examined patterns of variation at 20 microsatellite loci in a sample of 23 natural isolates of C. elegans from various parts of the world. One-half of the loci were monomorphic among all strains, and overall genetic variation at microsatellite loci was low, relative to most other species. Some population structure was detected, but there was no association between the genetic and geographic distances among different natural isolates. Thus, despite the nearly worldwide occurrence of C. elegans, little evidence was found for local adaptation in strains derived from different parts of the world. The low levels of genetic variation within and among populations suggest that recent colonization and population expansion might have occurred. However, the patterns of variation are not consistent with population expansion. A possible explanation for the observed patterns is the action of background selection to reduce polymorphism, coupled with ongoing gene flow among populations worldwide.

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Mitochondrial phylogeography and population history of finless porpoises in Sino-Japanese waters

Biological Journal of the Linnean Society ◽

10.1111/j.1095-8312.2008.0932.x ◽

2008 ◽

Vol 95 (1) ◽

pp. 193-204 ◽

Cited By ~ 21

Author(s):

GUANG YANG ◽

LI GUO ◽

MICHAEL W. BRUFORD ◽

FUWEN WEI ◽

KAIYA ZHOU

Keyword(s):

Population History ◽

History Of ◽

Japanese Waters

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Phylogeographic structure and gene flow of Himalayan snowcock (Tetraogallus himalayensis)

Animal Biology ◽

10.1163/157075610x523314 ◽

2010 ◽

Vol 60 (4) ◽

pp. 449-465

Author(s):

Wen Longying ◽

Zhang Lixun ◽

An Bei ◽

Luo Huaxing ◽

Liu Naifa ◽

...

Keyword(s):

Demographic History ◽

Phylogenetic Analyses ◽

Divergence Time ◽

Population Expansion ◽

Population History ◽

Tibet Plateau ◽

Phylogeographic Structure ◽

Mitochondrial Cytochrome B ◽

History Of ◽

Qinghai Tibet Plateau

AbstractWe have used phylogeographic methods to investigate the genetic structure and population history of the endangered Himalayan snowcock (Tetraogallus himalayensis) in northwestern China. The mitochondrial cytochrome b gene was sequenced of 102 individuals sampled throughout the distribution range. In total, we found 26 different haplotypes defined by 28 polymorphic sites. Phylogenetic analyses indicated that the samples were divided into two major haplogroups corresponding to one western and one eastern clade. The divergence time between these major clades was estimated to be approximately one million years. An analysis of molecular variance showed that 40% of the total genetic variability was found within local populations, 12% among populations within regional groups and 48% among groups. An analysis of the demographic history of the populations suggested that major expansions have occurred in the Himalayan snowcock populations and these correlate mainly with the first and the second largest glaciations during the Pleistocene. In addition, the data indicate that there was a population expansion of the Tianshan population during the uplift of the Qinghai-Tibet Plateau, approximately 2 million years ago.

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