3 Works

Biodiversity soup II

Douglas Yu, Chunyan Yang, Kristine Bohmann, Xiaoyang Wang, Cai Wang, Nathan Wales, Zhaoli Ding & Shyam Gopalakrishnan
1. Despite widespread recognition of its great promise to aid decision-making in environmental management, the applied use of metabarcoding requires improvements to reduce the multiple errors that arise during PCR amplification, sequencing, and library generation. We present a co-designed wet-lab and bioinformatic workflow for metabarcoding bulk samples that removes both false-positive (tag jumps, chimeras, erroneous sequences) and false-negative (‘dropout’) errors. However, we find that it is not possible to recover relative-abundance information from amplicon data,...

A single mutation underlying phenotypic convergence for hypoxia adaptation on the Qinghai-Tibetan Plateau

Dongming Xu
Similar highland phenotypes have evolved in different endemic mammals in the Qinghai-Tibetan Plateau (QTP). However, until' now, we know little about genomic underpinnings of these convergent phenotypes. Here, we de novo sequenced genomes of plateau pika and plateau zokor. Along with yak and Tibetan antelope genomes, we discovered that all four QTP mammal species share a mutation Q247R in RETSAT. In vitro functional experiments indicate that this mutation significantly increases RETSAT enzymatic activity. Knock-in mice...

Genome, annotations and SNPs for the green peafowl and associated scripts

Feng Dong, Hao-Chih Kuo, Guo-Ling Chen, Fei Wu, Peng-Fei Shan, Jie Wang, De Chen, Chih-Ming Hung, Yang Liu & Xiao-Jun Yang
Both anthropogenic impacts and historical climate change could contribute to population decline and species extinction, but their relative importance has yet to be determined. Emerging approaches based on genomic, climatic and anthropogenic data provide a promising analytical framework to address this question. This study applied such an integrative approach to examine potential drivers for endangerment of the green peafowl (Pavo muticus). Several demographic reconstructions based on population genomes congruently retrieved a drastic population declination since...

Registration Year

  • 2021
    3

Resource Types

  • Dataset
    3

Affiliations

  • Kunming Institute of Zoology
    3
  • Sun Yat-sen University
    1
  • Beijing Normal University
    1
  • Biodiversity Research Center, Academia Sinica
    1