fastsimcoal2: demographic inference under complex evolutionary scenarios

L Excoffier, N Marchi, DA Marques… - …, 2021 - academic.oup.com
Motivation fastsimcoal2 extends fastsimcoal, a continuous time coalescent-based genetic
simulation program, by enabling the estimation of demographic parameters under very …

Genomic evidence for inbreeding depression and purging of deleterious genetic variation in Indian tigers

A Khan, K Patel, H Shukla, A Viswanathan… - Proceedings of the …, 2021 - pnas.org
Increasing habitat fragmentation leads to wild populations becoming small, isolated, and
threatened by inbreeding depression. However, small populations may be able to purge …

Unraveling the genomic diversity and admixture history of captive tigers in the United States

EE Armstrong, JA Mooney, KA Solari, BY Kim… - Proceedings of the …, 2024 - pnas.org
Genomic studies of endangered species have primarily focused on describing diversity
patterns and resolving phylogenetic relationships, with the overarching goal of informing …

Ancient DNA reveals genetic admixture in China during tiger evolution

X Sun, YC Liu, MP Tiunov, DO Gimranov… - Nature ecology & …, 2023 - nature.com
The tiger (Panthera tigris) is a charismatic megafauna species that originated and diversified
in Asia and probably experienced population contraction and expansion during the …

Whole-genome resequencing of Chinese pangolins reveals a population structure and provides insights into their conservation

Q Wang, T Lan, H Li, SK Sahu, M Shi, Y Zhu… - Communications …, 2022 - nature.com
Poaching and trafficking have a substantial negative impact on the population growth and
range expansion of the Chinese pangolin (Manis pentadactyla). However, recently reported …

How methodological changes have influenced our understanding of population structure in threatened species: insights from tiger populations across India

M Aylward, V Sagar, M Natesh… - … Transactions of the …, 2022 - royalsocietypublishing.org
Unprecedented advances in sequencing technology in the past decade allow a better
understanding of genetic variation and its partitioning in natural populations. Such inference …

Genomes of endangered great hammerhead and shortfin mako sharks reveal historic population declines and high levels of inbreeding in great hammerhead

MJ Stanhope, KM Ceres, Q Sun, M Wang, JD Zehr… - Iscience, 2023 - cell.com
Despite increasing threats of extinction to Elasmobranchii (sharks and rays), whole genome-
based conservation insights are lacking. Here, we present chromosome-level genome …

Chromosome‐scale genomes reveal genomic consequences of inbreeding in the South China tiger: A comparative study with the Amur tiger

L Zhang, T Lan, C Lin, W Fu, Y Yuan… - Molecular Ecology …, 2023 - Wiley Online Library
Abstract The South China tiger (Panthera tigris amoyensis, SCT) is the most critically
endangered subspecies of tiger due to functional extinction in the wild. Inbreeding …

Long live the king: chromosome-level assembly of the lion (Panthera leo) using linked-read, Hi-C, and long-read data

EE Armstrong, RW Taylor, DE Miller, CB Kaelin… - BMC biology, 2020 - Springer
Abstract Background The lion (Panthera leo) is one of the most popular and iconic feline
species on the planet, yet in spite of its popularity, the last century has seen massive …

High frequency of an otherwise rare phenotype in a small and isolated tiger population

V Sagar, CB Kaelin, M Natesh, PA Reddy… - Proceedings of the …, 2021 - pnas.org
Most endangered species exist today in small populations, many of which are isolated.
Evolution in such populations is largely governed by genetic drift. Empirical evidence for drift …