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Whole genomes show contrasting trends of population size changes and genomic diversity for an Amazonian endemic passerine over the late quaternary.

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Title: Whole genomes show contrasting trends of population size changes and genomic diversity for an Amazonian endemic passerine over the late quaternary.
Authors: Dalapicolla, Jeronymo1,2 (AUTHOR), Weir, Jason T.3,4,5 (AUTHOR), Vilaça, Sibelle Torres1 (AUTHOR), Quaresma, Tânia Fontes1 (AUTHOR), Schneider, Maria P. C.6 (AUTHOR), Vasconcelos, Ana Tereza R.7 (AUTHOR), Aleixo, Alexandre1 (AUTHOR) alexandre.aleixo@itv.org
Source: Ecology & Evolution (20457758). Apr2024, Vol. 14 Issue 4, p1-22. 22p.
Subject Terms: *Last Glacial Maximum, *Demography, Demographic change, Genomes, Endemic species, Homozygosity
Abstract: The "Amazon tipping point" is a global change scenario resulting in replacement of upland terra‐firme forests by large‐scale "savannization" of mostly southern and eastern Amazon. Reduced rainfall accompanying the Last Glacial Maximum (LGM) has been proposed to have acted as such a tipping point in the past, with the prediction that terra‐firme inhabiting species should have experienced reductions in population size as drier habitats expanded. Here, we use whole‐genomes of an Amazonian endemic organism (Scale‐backed antbirds – Willisornis spp.) sampled from nine populations across the region to test this historical demography scenario. Populations from southeastern Amazonia and close to the Amazon–Cerrado ecotone exhibited a wide range of demographic patterns, while most of those from northern and western Amazonia experienced uniform expansions between 400 kya and 80–60 kya, with gradual declines toward 20 kya. Southeastern populations of Willisornis were the last to diversify and showed smaller heterozygosity and higher runs of homozygosity values than western and northern populations. These patterns support historical population declines throughout the Amazon that affected more strongly lineages in the southern and eastern areas, where historical "tipping point" conditions existed due to the widespread replacement of humid forest by drier and open vegetation during the LGM. [ABSTRACT FROM AUTHOR]
Copyright of Ecology & Evolution (20457758) is the property of Wiley-Blackwell and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)
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  Data: Whole genomes show contrasting trends of population size changes and genomic diversity for an Amazonian endemic passerine over the late quaternary.
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  Data: <searchLink fieldCode="AR" term="%22Dalapicolla%2C+Jeronymo%22">Dalapicolla, Jeronymo</searchLink><relatesTo>1,2</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Weir%2C+Jason+T%2E%22">Weir, Jason T.</searchLink><relatesTo>3,4,5</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Vilaça%2C+Sibelle+Torres%22">Vilaça, Sibelle Torres</searchLink><relatesTo>1</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Quaresma%2C+Tânia+Fontes%22">Quaresma, Tânia Fontes</searchLink><relatesTo>1</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Schneider%2C+Maria+P%2E+C%2E%22">Schneider, Maria P. C.</searchLink><relatesTo>6</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Vasconcelos%2C+Ana+Tereza+R%2E%22">Vasconcelos, Ana Tereza R.</searchLink><relatesTo>7</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Aleixo%2C+Alexandre%22">Aleixo, Alexandre</searchLink><relatesTo>1</relatesTo> (AUTHOR)<i> alexandre.aleixo@itv.org</i>
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  Data: <searchLink fieldCode="JN" term="%22Ecology+%26+Evolution+%2820457758%29%22">Ecology & Evolution (20457758)</searchLink>. Apr2024, Vol. 14 Issue 4, p1-22. 22p.
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  Data: *<searchLink fieldCode="DE" term="%22Last+Glacial+Maximum%22">Last Glacial Maximum</searchLink><br />*<searchLink fieldCode="DE" term="%22Demography%22">Demography</searchLink><br /><searchLink fieldCode="DE" term="%22Demographic+change%22">Demographic change</searchLink><br /><searchLink fieldCode="DE" term="%22Genomes%22">Genomes</searchLink><br /><searchLink fieldCode="DE" term="%22Endemic+species%22">Endemic species</searchLink><br /><searchLink fieldCode="DE" term="%22Homozygosity%22">Homozygosity</searchLink>
– Name: Abstract
  Label: Abstract
  Group: Ab
  Data: The "Amazon tipping point" is a global change scenario resulting in replacement of upland terra‐firme forests by large‐scale "savannization" of mostly southern and eastern Amazon. Reduced rainfall accompanying the Last Glacial Maximum (LGM) has been proposed to have acted as such a tipping point in the past, with the prediction that terra‐firme inhabiting species should have experienced reductions in population size as drier habitats expanded. Here, we use whole‐genomes of an Amazonian endemic organism (Scale‐backed antbirds – Willisornis spp.) sampled from nine populations across the region to test this historical demography scenario. Populations from southeastern Amazonia and close to the Amazon–Cerrado ecotone exhibited a wide range of demographic patterns, while most of those from northern and western Amazonia experienced uniform expansions between 400 kya and 80–60 kya, with gradual declines toward 20 kya. Southeastern populations of Willisornis were the last to diversify and showed smaller heterozygosity and higher runs of homozygosity values than western and northern populations. These patterns support historical population declines throughout the Amazon that affected more strongly lineages in the southern and eastern areas, where historical "tipping point" conditions existed due to the widespread replacement of humid forest by drier and open vegetation during the LGM. [ABSTRACT FROM AUTHOR]
– Name: AbstractSuppliedCopyright
  Label:
  Group: Ab
  Data: <i>Copyright of Ecology & Evolution (20457758) is the property of Wiley-Blackwell and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract.</i> (Copyright applies to all Abstracts.)
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        Value: 10.1002/ece3.11250
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        Text: English
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      – SubjectFull: Demography
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      – SubjectFull: Demographic change
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      – SubjectFull: Genomes
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      – SubjectFull: Endemic species
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      – SubjectFull: Homozygosity
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      – TitleFull: Whole genomes show contrasting trends of population size changes and genomic diversity for an Amazonian endemic passerine over the late quaternary.
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              Text: Apr2024
              Type: published
              Y: 2024
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