Differential depth distribution of microbial function and putative symbionts through sediment-hosted aquifers in the deep terrestrial subsurface

AJ Probst, B Ladd, JK Jarett, DE Geller-McGrath… - Nature …, 2018 - nature.com
An enormous diversity of previously unknown bacteria and archaea has been discovered
recently, yet their functional capacities and distributions in the terrestrial subsurface remain …

DeepSF: deep convolutional neural network for mapping protein sequences to folds

J Hou, B Adhikari, J Cheng - Bioinformatics, 2018 - academic.oup.com
Motivation Protein fold recognition is an important problem in structural bioinformatics.
Almost all traditional fold recognition methods use sequence (homology) comparison to …

A review of visualisations of protein fold networks and their relationship with sequence and function

J Sykes, BR Holland, MA Charleston - Biological Reviews, 2023 - Wiley Online Library
Proteins form arguably the most significant link between genotype and phenotype.
Understanding the relationship between protein sequence and structure, and applying this …

Exploiting the human peptidome for novel antimicrobial and anticancer agents

M Bosso, L Ständker, F Kirchhoff, J Münch - Bioorganic & Medicinal …, 2018 - Elsevier
Infectious diseases and cancers are leading causes of death and pose major challenges to
public health. The human peptidome encompasses millions of compounds that display an …

Transposons played a major role in the diversification between the closely related almond and peach genomes: results from the almond genome sequence

T Alioto, KG Alexiou, A Bardil, F Barteri… - The Plant …, 2020 - Wiley Online Library
We sequenced the genome of the highly heterozygous almond Prunus dulcis cv. Texas
combining short‐and long‐read sequencing. We obtained a genome assembly totaling …

Groundwater cable bacteria conserve energy by sulfur disproportionation

H Müller, S Marozava, AJ Probst… - The ISME …, 2020 - academic.oup.com
Cable bacteria of the family Desulfobulbaceae couple spatially separated sulfur oxidation
and oxygen or nitrate reduction by long-distance electron transfer, which can constitute the …

FoldRec-C2C: protein fold recognition by combining cluster-to-cluster model and protein similarity network

J Shao, K Yan, B Liu - Briefings in bioinformatics, 2021 - academic.oup.com
As a key for studying the protein structures, protein fold recognition is playing an important
role in predicting the protein structures associated with COVID-19 and other important …

ProtFold-DFG: protein fold recognition by combining Directed Fusion Graph and PageRank algorithm

J Shao, B Liu - Briefings in Bioinformatics, 2021 - academic.oup.com
As one of the most important tasks in protein structure prediction, protein fold recognition has
attracted more and more attention. In this regard, some computational predictors have been …

A chromosome‐level genome assembly enables the identification of the follicule stimulating hormone receptor as the master sex‐determining gene in the flatfish …

R de la Herrán, M Hermida, JA Rubiolo… - Molecular Ecology …, 2023 - Wiley Online Library
Sex determination (SD) shows huge variation among fish and a high evolutionary rate, as
illustrated by the Pleuronectiformes (flatfishes). This order is characterized by its adaptation …

Virulence as a Side Effect of Interspecies Interaction in Vibrio Coral Pathogens

E Rubio-Portillo, AB Martin-Cuadrado… - MBio, 2020 - Am Soc Microbiol
The increase in prevalence and severity of coral disease outbreaks produced by Vibrio
pathogens, and related to global warming, has seriously impacted reef-building corals …