[HTML][HTML] How genomics can help biodiversity conservation

K Theissinger, C Fernandes, G Formenti, I Bista… - Trends in genetics, 2023 - cell.com
The availability of public genomic resources can greatly assist biodiversity assessment,
conservation, and restoration efforts by providing evidence for scientifically informed …

Tandem repeats lead to sequence assembly errors and impose multi-level challenges for genome and protein databases

OK Tørresen, B Star, P Mier… - Nucleic acids …, 2019 - academic.oup.com
The widespread occurrence of repetitive stretches of DNA in genomes of organisms across
the tree of life imposes fundamental challenges for sequencing, genome assembly, and …

The Ensembl gene annotation system

BL Aken, S Ayling, D Barrell, L Clarke, V Curwen… - Database, 2016 - academic.oup.com
The Ensembl gene annotation system has been used to annotate over 70 different
vertebrate species across a wide range of genome projects. Furthermore, it generates the …

A comparison of the innate and adaptive immune systems in cartilaginous fish, ray-finned fish, and lobe-finned fish

NC Smith, ML Rise, SL Christian - Frontiers in immunology, 2019 - frontiersin.org
The immune system is composed of two subsystems—the innate immune system and the
adaptive immune system. The innate immune system is the first to respond to pathogens and …

Mechanisms to mitigate the trade-off between growth and defense

TL Karasov, E Chae, JJ Herman, J Bergelson - The Plant Cell, 2017 - academic.oup.com
Plants have evolved an array of defenses against pathogens. However, mounting a defense
response frequently comes with the cost of a reduction in growth and reproduction, carrying …

A cold-blooded view of adaptive immunity

MF Flajnik - Nature Reviews Immunology, 2018 - nature.com
The adaptive immune system arose 500 million years ago in ectothermic (cold-blooded)
vertebrates. Classically, the adaptive immune system has been defined by the presence of …

Toll-like receptors, associated biological roles, and signaling networks in non-mammals

L Nie, SY Cai, JZ Shao, J Chen - Frontiers in immunology, 2018 - frontiersin.org
The innate immune system is the first line of defense against pathogens, which is initiated by
the recognition of pathogen-associated molecular patterns (PAMPs) and endogenous …

Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads

R Kajitani, K Toshimoto, H Noguchi, A Toyoda… - Genome …, 2014 - genome.cshlp.org
Although many de novo genome assembly projects have recently been conducted using
high-throughput sequencers, assembling highly heterozygous diploid genomes is a …

The oyster genome reveals stress adaptation and complexity of shell formation

G Zhang, X Fang, X Guo, LI Li, R Luo, F Xu, P Yang… - Nature, 2012 - nature.com
Abstract The Pacific oyster Crassostrea gigas belongs to one of the most species-rich but
genomically poorly explored phyla, the Mollusca. Here we report the sequencing and …

CD4 helper and CD8 cytotoxic T cell differentiation

I Taniuchi - Annual review of Immunology, 2018 - annualreviews.org
A fundamental question in developmental immunology is how bipotential thymocyte
precursors generate both CD4+ helper and CD8+ cytotoxic T cell lineages. The MHC …