Phylogenomics

Phylogenomics involves the reconstruction of evolutionary relationships by comparing sequences of whole genomes or portions of genomes.

Latest Research and Reviews

  • Research
    | Open Access

    Spatiotemporal sampling gaps in existing pathogen genomic data limits their use in understanding epidemiological patterns. Here, the authors apply a phylogeographic approach with SARS-CoV-2 genomes to accurately reproduce pathogen spread by accounting for spatial biases and travel history of the individual.

    • Philippe Lemey
    • , Samuel L. Hong
    • , Verity Hill
    • , Guy Baele
    • , Chiara Poletto
    • , Vittoria Colizza
    • , Áine O’Toole
    • , John T. McCrone
    • , Kristian G. Andersen
    • , Michael Worobey
    • , Martha I. Nelson
    • , Andrew Rambaut
    •  & Marc A. Suchard
  • Research
    | Open Access

    Mechanism of high altitude adaptation of wheat remains unknown. Here, the authors assemble the draft genome of a Tibetan semi-wild wheat accession and resequence 245 wheat accessions to reveal that Tibetan semi-wild wheat has been de-domesticated from local landraces to adapt to high altitude.

    • Weilong Guo
    • , Mingming Xin
    • , Zihao Wang
    • , Yingyin Yao
    • , Zhaorong Hu
    • , Wanjun Song
    • , Kuohai Yu
    • , Yongming Chen
    • , Xiaobo Wang
    • , Panfeng Guan
    • , Rudi Appels
    • , Huiru Peng
    • , Zhongfu Ni
    •  & Qixin Sun
  • Research
    | Open Access

    Although SARS-CoV-2 has spread rapidly, the contribution of super-spreading events to transmission is unclear. Here, the authors show that the number of secondary infections arising from an individual infection in the early phase of the outbreak was highly skewed, indicating that super-spreading events occurred.

    • Liang Wang
    • , Xavier Didelot
    • , Jing Yang
    • , Gary Wong
    • , Yi Shi
    • , Wenjun Liu
    • , George F. Gao
    •  & Yuhai Bi
  • Research
    | Open Access

    The mitochondrial calcium uptake system, crucial for cellular processes, evolved in ancient eukaryotes. Here, authors perform a phylogenomic analysis across 1,156 eukaryotes, and show that previously identified animal and fungal genes in this system originated from an ancestral duplication.

    • Alexandros A. Pittis
    • , Valerie Goh
    • , Alberto Cebrian-Serrano
    • , Jennifer Wettmarshausen
    • , Fabiana Perocchi
    •  & Toni Gabaldón
  • Research
    | Open Access

    The evolutionary relationships within Archaea remain unresolved. Here, the authors used genomic approaches to study the Undinarchaeota, a previously uncharacterized clade of DPANN, shed light on their position in an updated archaeal phylogeny and illuminate the history of archaeal genome evolution.

    • Nina Dombrowski
    • , Tom A. Williams
    • , Jiarui Sun
    • , Benjamin J. Woodcroft
    • , Jun-Hoe Lee
    • , Bui Quang Minh
    • , Christian Rinke
    •  & Anja Spang

News and Comment