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Multiphyletic origins of methylotrophy in A lphaproteobacteria , exemplified by comparative genomics of L ake W ashington isolates
Author(s) -
Beck David A. C.,
McTaggart Tami L.,
Setboonsarng Usanisa,
Vorobev Alexey,
Goodwin Lynne,
Shapiro Nicole,
Woyke Tanja,
Kalyuzhnaya Marina G.,
Lidstrom Mary E.,
Chistoserdova Ludmila
Publication year - 2015
Publication title -
environmental microbiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.954
H-Index - 188
eISSN - 1462-2920
pISSN - 1462-2912
DOI - 10.1111/1462-2920.12736
Subject(s) - biology , serine , metabolic pathway , genome , phylogenetic tree , comparative genomics , computational biology , genetics , genomics , biochemistry , gene , enzyme
Summary We sequenced the genomes of 19 methylotrophic isolates from L ake W ashington, which belong to nine genera within eight families of the A lphaproteobacteria , two of the families being the newly proposed families. Comparative genomic analysis with a focus on methylotrophy metabolism classifies these strains into heterotrophic and obligately or facultatively autotrophic methylotrophs. The most persistent metabolic modules enabling methylotrophy within this group are the N ‐methylglutamate pathway, the two types of methanol dehydrogenase ( MxaFI and XoxF ), the tetrahydromethanopterin pathway for formaldehyde oxidation, the serine cycle and the ethylmalonyl‐ CoA pathway. At the same time, a great potential for metabolic flexibility within this group is uncovered, with different combinations of these modules present. Phylogenetic analysis of key methylotrophy functions reveals that the serine cycle must have evolved independently in at least four lineages of A lphaproteobacteria and that all methylotrophy modules seem to be prone to lateral transfers as well as deletions.