Zobrazeno 1 - 10
of 138
pro vyhledávání: '"Morgan N. Price"'
Autor:
Yolanda Y. Huang, Morgan N. Price, Allison Hung, Omree Gal-Oz, Surya Tripathi, Christopher W. Smith, Davian Ho, Héloïse Carion, Adam M. Deutschbauer, Adam P. Arkin
Publikováno v:
Nature Communications, Vol 15, Iss 1, Pp 1-17 (2024)
Abstract A mechanistic understanding of host-microbe interactions in the gut microbiome is hindered by poorly annotated bacterial genomes. While functional genomics can generate large gene-to-phenotype datasets to accelerate functional discovery, the
Externí odkaz:
https://doaj.org/article/6c26e2bd51264f1ca4e44d71b211f4aa
Autor:
Leslie A. Day, Hans K. Carlson, Dallas R. Fonseca, Adam P. Arkin, Morgan N. Price, Adam M. Deutschbauer, Kyle C. Costa
Publikováno v:
mBio, Vol 15, Iss 9 (2024)
ABSTRACT Archaea are widespread in the environment and play fundamental roles in diverse ecosystems; however, characterization of their unique biology requires advanced tools. This is particularly challenging when characterizing gene function. Here,
Externí odkaz:
https://doaj.org/article/f3bd2900f92a4e9f8162b51d66ec7fc8
Publikováno v:
Nature Communications, Vol 14, Iss 1, Pp 1-11 (2023)
Abstract Many microorganisms are auxotrophic—unable to synthesize the compounds they require for growth. With this work, we quantify the prevalence of amino acid auxotrophies across a broad diversity of bacteria and habitats. We predicted the amino
Externí odkaz:
https://doaj.org/article/59b6278643534db3957a3fdd4e82398f
Autor:
Morgan N. Price, Adam P. Arkin
Publikováno v:
PLoS ONE, Vol 19, Iss 4 (2024)
Externí odkaz:
https://doaj.org/article/cf25a46a6b21402ea11ca04e35cfbb5c
Autor:
Valentine V. Trotter, Maxim Shatsky, Morgan N. Price, Thomas R. Juba, Grant M. Zane, Kara B. De León, Erica L.-W. Majumder, Qin Gui, Rida Ali, Kelly M. Wetmore, Jennifer V. Kuehl, Adam P. Arkin, Judy D. Wall, Adam M. Deutschbauer, John-Marc Chandonia, Gareth P. Butland
Publikováno v:
Frontiers in Microbiology, Vol 14 (2023)
Sulfate-reducing bacteria (SRB) are obligate anaerobes that can couple their growth to the reduction of sulfate. Despite the importance of SRB to global nutrient cycles and their damage to the petroleum industry, our molecular understanding of their
Externí odkaz:
https://doaj.org/article/698e9540197c469782ae475458a7cc15
Autor:
Morgan N. Price, Adam P. Arkin
Publikováno v:
mSystems, Vol 7, Iss 6 (2022)
ABSTRACT A protein’s function depends on functional residues that determine its binding specificity or its catalytic activity, but these residues are typically not considered when annotating a protein’s function. To help biologists investigate th
Externí odkaz:
https://doaj.org/article/01ab1195731c4286a06847b9c88e50f8
Publikováno v:
PLoS Genetics, Vol 18, Iss 4 (2022)
To discover novel catabolic enzymes and transporters, we combined high-throughput genetic data from 29 bacteria with an automated tool to find gaps in their catabolic pathways. GapMind for carbon sources automatically annotates the uptake and catabol
Externí odkaz:
https://doaj.org/article/82aa5670421c48d9acf0e16aa36445ea
Autor:
Vivek K. Mutalik, Pavel S. Novichkov, Morgan N. Price, Trenton K. Owens, Mark Callaghan, Sean Carim, Adam M. Deutschbauer, Adam P. Arkin
Publikováno v:
Nature Communications, Vol 10, Iss 1, Pp 1-14 (2019)
Gain of function methods based on gene overexpression are not easily applied to high-throughput screening across different experimental conditions. Here, the authors present Dub-seq, which separates overexpression library characterization from functi
Externí odkaz:
https://doaj.org/article/3444650c24824da0912c4a2da5a186b7
Publikováno v:
mSystems, Vol 5, Iss 3 (2020)
ABSTRACT GapMind is a Web-based tool for annotating amino acid biosynthesis in bacteria and archaea (http://papers.genomics.lbl.gov/gaps). GapMind incorporates many variant pathways and 130 different reactions, and it analyzes a genome in just 15 s.
Externí odkaz:
https://doaj.org/article/d3c201f67dc042bcaecef452dde673f8
Autor:
Morgan N. Price, Adam P. Arkin
Publikováno v:
mSystems, Vol 4, Iss 2 (2019)
ABSTRACT Curated BLAST for Genomes finds candidate genes for a process or an enzymatic activity within a genome of interest. In contrast to annotation tools, which usually predict a single activity for each protein, Curated BLAST asks if any of the p
Externí odkaz:
https://doaj.org/article/f5b2f47470534ff099b8a3d1b98204e0