Mining museums for historical DNA: advances and challenges in museomics
CJ Raxworthy, BT Smith - Trends in Ecology & Evolution, 2021 - cell.com
Historical DNA (hDNA), obtained from museum and herbarium specimens, has yielded
spectacular new insights into the history of organisms. This includes documenting historical …
spectacular new insights into the history of organisms. This includes documenting historical …
Ancient genomes reveal over two thousand years of dingo population structure
Dingoes are culturally and ecologically important free-living canids whose ancestors arrived
in Australia over 3,000 BP, likely transported by seafaring people. However, the early history …
in Australia over 3,000 BP, likely transported by seafaring people. However, the early history …
The practice and promise of temporal genomics for measuring evolutionary responses to global change
Understanding the evolutionary consequences of anthropogenic change is imperative for
estimating long‐term species resilience. While contemporary genomic data can provide us …
estimating long‐term species resilience. While contemporary genomic data can provide us …
Allelic bias when performing in‐solution enrichment of ancient human DNA
In‐solution hybridisation enrichment of genetic variation is a valuable methodology in
human paleogenomics. It allows enrichment of endogenous DNA by targeting genetic …
human paleogenomics. It allows enrichment of endogenous DNA by targeting genetic …
Additional evaluations show that specific BWA‐aln settings still outperform BWA‐mem for ancient DNA data alignment
2 METHODS We investigated the alignment performance of the parameterization
recommended by Xu et al.(2021), that is,-k 19 and-r 2.5 (hereafter called BWA9) against …
recommended by Xu et al.(2021), that is,-k 19 and-r 2.5 (hereafter called BWA9) against …
Colonial-driven extinction of the blue antelope despite genomic adaptation to low population size
Low genomic diversity is generally indicative of small population size and is considered
detrimental by decreasing long-term adaptability. 1, 2, 3, 4, 5, 6 Moreover, small population …
detrimental by decreasing long-term adaptability. 1, 2, 3, 4, 5, 6 Moreover, small population …
Unravelling reference bias in ancient DNA datasets
S Dolenz, T van der Valk, C Jin, J Oppenheimer… - …, 2024 - academic.oup.com
Motivation The alignment of sequencing reads is a critical step in the characterization of
ancient genomes. However, reference bias and spurious mappings pose a significant …
ancient genomes. However, reference bias and spurious mappings pose a significant …
Genomic recovery lags behind demographic recovery in bottlenecked populations of the Channel Island fox, Urocyon littoralis
With continued global change, recovery of species listed under the Endangered Species Act
is increasingly challenging. One rare success was the recovery and delisting of the Channel …
is increasingly challenging. One rare success was the recovery and delisting of the Channel …
Pre-processing of paleogenomes: Mitigating reference bias and postmortem damage in ancient genome data
Ancient DNA analysis is subject to various technical challenges, including bias towards the
reference allele (" reference bias"), postmortem damage (PMD) that confounds real variants …
reference allele (" reference bias"), postmortem damage (PMD) that confounds real variants …
[HTML][HTML] Shotgun metagenomics reveals the gut microbial diversity and functions in Vespa mandarinia (Hymenoptera: Vespidae) at multiple life stages
PK Yin, H Xiao, ZB Yang, DS Yang… - Frontiers in Microbiology, 2024 - frontiersin.org
Wasps play important roles as predators and pollinators in the ecosystem. The Jingpo
minority residing in Yunnan Province, China, has a traditional practice of using wine infused …
minority residing in Yunnan Province, China, has a traditional practice of using wine infused …