Linking genotypic and phenotypic changes in the
E. coli
LTEE
adaptation
bacteria
evolutionary biology
metabolomics
Journal
eLife
ISSN: 2050-084X
Titre abrégé: Elife
Pays: England
ID NLM: 101579614
Informations de publication
Date de publication:
22 Nov 2023
22 Nov 2023
Historique:
medline:
27
11
2023
pubmed:
22
11
2023
entrez:
22
11
2023
Statut:
epublish
Résumé
Changes in an organism's environment, genome, or gene expression patterns can lead to changes in its metabolism. The metabolic phenotype can be under selection and contributes to adaptation. However, the networked and convoluted nature of an organism's metabolism makes relating mutations, metabolic changes, and effects on fitness challenging. To overcome this challenge, we use the long-term evolution experiment (LTEE) with
Identifiants
pubmed: 37991493
doi: 10.7554/eLife.87039
pii: 87039
pmc: PMC10665018
doi:
pii:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Subventions
Organisme : NIGMS NIH HHS
ID : R35 GM147566
Pays : United States
Organisme : NIH HHS
ID : R35 GM124976
Pays : United States
Organisme : NIH HHS
ID : R35 GM147566
Pays : United States
Organisme : NIH HHS
ID : CCSG P30CA072720-5923
Pays : United States
Organisme : NIGMS NIH HHS
ID : R35 GM124976
Pays : United States
Commentaires et corrections
Type : UpdateOf
Informations de copyright
© 2023, Favate et al.
Déclaration de conflit d'intérêts
JF, EC, XS No competing interests declared, KS Kyle S. Skalenko is a scientist at Specialty Assays Inc, SY Srujana S Yadavalli consults and collaborates with Designs for Vision Inc, PS Premal Shah is a member of the Scientific Advisory Board of Trestle Biosciences and is a Director at Ananke Therapeutics
Références
PLoS Biol. 2014 Feb 18;12(2):e1001789
pubmed: 24558347
Elife. 2022 Oct 10;11:
pubmed: 36214449
Mol Biol Evol. 2021 Jun 25;38(7):2778-2790
pubmed: 33734381
R Soc Open Sci. 2017 Jul 19;4(7):170497
pubmed: 28791173
Mol Biol Evol. 2022 Jan 7;39(1):
pubmed: 34662414
Evolution. 2010 Oct;64(10):3024-34
pubmed: 20550574
Proc Natl Acad Sci U S A. 2006 Jun 13;103(24):9107-12
pubmed: 16751270
Genetics. 2006 Aug;173(4):1851-69
pubmed: 16702438
Science. 2012 Jan 27;335(6067):457-61
pubmed: 22282810
FEMS Microbiol Rev. 2010 Jul;34(4):476-95
pubmed: 20236330
Science. 2013 Dec 13;342(6164):1364-7
pubmed: 24231808
Science. 1956 Feb 24;123(3191):309-14
pubmed: 13298683
Proc Natl Acad Sci U S A. 2003 Feb 4;100(3):1072-7
pubmed: 12538876
Proc Natl Acad Sci U S A. 2008 Feb 5;105(5):1585-9
pubmed: 18216261
Nature. 2016 Aug 11;536(7615):165-70
pubmed: 27479321
J Bacteriol. 2021 Apr 21;203(10):
pubmed: 33649147
Proc Natl Acad Sci U S A. 2006 May 16;103(20):7601-6
pubmed: 16682646
Am Nat. 2000 Jan;155(1):24-35
pubmed: 10657174
Vitam Horm. 2001;61:103-19
pubmed: 11153263
EcoSal Plus. 2005 Nov;1(2):
pubmed: 26443507
Cell Metab. 2015 Jul 7;22(1):31-53
pubmed: 26118927
EcoSal Plus. 2009 Aug;3(2):
pubmed: 26443758
Sci Rep. 2017 Feb 10;7:42135
pubmed: 28186174
Acta Naturae. 2015 Oct-Dec;7(4):22-33
pubmed: 26798489
Bioessays. 2007 Sep;29(9):846-60
pubmed: 17691099
Mol Microbiol. 1994 Aug;13(4):599-608
pubmed: 7997172
Nature. 2002 Nov 14;420(6912):186-9
pubmed: 12432395
Elife. 2022 Nov 21;11:
pubmed: 36409069
J Bacteriol. 2001 May;183(9):2834-41
pubmed: 11292803
Nature. 2012 Sep 27;489(7417):513-8
pubmed: 22992527
PLoS Comput Biol. 2013;9(6):e1003091
pubmed: 23818838
Evolution. 1995 Feb;49(1):189-200
pubmed: 28593661
Proc Biol Sci. 2015 Dec 22;282(1821):20152292
pubmed: 26674951
Am Zool. 1964 Nov;4:443-52
pubmed: 14223586
Proc Natl Acad Sci U S A. 2008 Jun 10;105(23):7899-906
pubmed: 18524956
Sci Rep. 2018 Jan 12;8(1):663
pubmed: 29330539
Science. 2014 Mar 21;343(6177):1366-9
pubmed: 24603152
J Bacteriol. 2009 Feb;191(3):909-21
pubmed: 19047356
Nat Prod Rep. 2020 Apr 1;37(4):566-599
pubmed: 31822877
Anal Chem. 2020 Apr 7;92(7):4829-4837
pubmed: 32125145
EcoSal Plus. 2004 Dec;1(1):
pubmed: 26443366
Elife. 2015 Oct 14;4:
pubmed: 26465114
ISME J. 2017 Oct;11(10):2181-2194
pubmed: 28509909
Eur J Biochem. 2001 Aug;268(15):4359-65
pubmed: 11488932
Front Microbiol. 2017 Oct 16;8:2000
pubmed: 29085349
J Bacteriol. 2005 Apr;187(8):2774-82
pubmed: 15805524
Nature. 2017 Nov 2;551(7678):45-50
pubmed: 29045390
mBio. 2021 Jan 26;12(1):
pubmed: 33500336
Nucleic Acids Res. 2016 Jan 4;44(D1):D495-501
pubmed: 26481353
Nucleic Acids Res. 2005 Jan 1;33(Database issue):D334-7
pubmed: 15608210
Biochim Biophys Acta. 1978 Nov 1;543(4):484-96
pubmed: 718985