What have we learned from the first 500 avian genomes?

GA Bravo, CJ Schmitt… - Annual Review of Ecology …, 2021 - annualreviews.org
The increased capacity of DNA sequencing has significantly advanced our understanding of
the phylogeny of birds and the proximate and ultimate mechanisms molding their genomic …

Evolutionary analysis of a complete chicken genome

Z Huang, Z Xu, H Bai, Y Huang, N Kang, X Ding… - Proceedings of the …, 2023 - pnas.org
Microchromosomes are prevalent in nonmammalian vertebrates [PD Waters et al., Proc.
Natl. Acad. Sci. USA 118 (2021)], but a few of them are missing in bird genome assemblies …

Evolution of bird genomes—a transposon's‐eye view

A Kapusta, A Suh - Annals of the New York Academy of …, 2017 - Wiley Online Library
Birds, the most species‐rich monophyletic group of land vertebrates, have been subject to
some of the most intense sequencing efforts to date, making them an ideal case study for …

Towards complete and error-free genome assemblies of all vertebrate species

A Rhie, SA McCarthy, O Fedrigo, J Damas, G Formenti… - Nature, 2021 - nature.com
High-quality and complete reference genome assemblies are fundamental for the
application of genomics to biology, disease, and biodiversity conservation. However, such …

BUSCO applications from quality assessments to gene prediction and phylogenomics

RM Waterhouse, M Seppey, FA Simão… - Molecular biology …, 2018 - academic.oup.com
Genomics promises comprehensive surveying of genomes and metagenomes, but rapidly
changing technologies and expanding data volumes make evaluation of completeness a …

A pathway for mitotic chromosome formation

JH Gibcus, K Samejima, A Goloborodko, I Samejima… - Science, 2018 - science.org
INTRODUCTION During mitosis, cells compact their chromosomes into dense rod-shaped
structures to ensure their reliable transmission to daughter cells. Our work explores how …

[HTML][HTML] African lungfish genome sheds light on the vertebrate water-to-land transition

K Wang, J Wang, C Zhu, L Yang, Y Ren, J Ruan, G Fan… - Cell, 2021 - cell.com
Lungfishes are the closest extant relatives of tetrapods and preserve ancestral traits linked
with the water-to-land transition. However, their huge genome sizes have hindered …

The sea lamprey germline genome provides insights into programmed genome rearrangement and vertebrate evolution

JJ Smith, N Timoshevskaya, C Ye, C Holt, MC Keinath… - Nature …, 2018 - nature.com
The sea lamprey (Petromyzon marinus) serves as a comparative model for reconstructing
vertebrate evolution. To enable more informed analyses, we developed a new assembly of …

[PDF][PDF] De novo assembly of 20 chicken genomes reveals the undetectable phenomenon for thousands of core genes on microchromosomes and subtelomeric regions

M Li, C Sun, N Xu, P Bian, X Tian… - Molecular Biology …, 2022 - academic.oup.com
The gene numbers and evolutionary rates of birds were assumed to be much lower than
those of mammals, which is in sharp contrast to the huge species number and …

Identifying the causes and consequences of assembly gaps using a multiplatform genome assembly of a bird‐of‐paradise

V Peona, MPK Blom, L Xu, R Burri… - Molecular ecology …, 2021 - Wiley Online Library
Genome assemblies are currently being produced at an impressive rate by consortia and
individual laboratories. The low costs and increasing efficiency of sequencing technologies …