Metagenome-assembled genomes of freshwater Hyphomicrobium sp. G-191 and Methylophilus sp. enriched from Cedar Swamp, Woods Hole, MA

Huang, Yolanda; Schomer, Rebecca; Reyes, María José Rodríguez; Costa, Kyle; Parales, Rebecca E.; Whitaker, Rachel; Dawson, Scott C.; Maresca, ed., Julia A.

doi:10.1128/mra.00608-24

Title: Metagenome-assembled genomes of freshwater Hyphomicrobium sp. G-191 and Methylophilus sp. enriched from Cedar Swamp, Woods Hole, MA

Journal Article · 11 December 2024 · Microbiology Resource Announcements

DOI: https://doi.org/10.1128/mra.00608-24 · OSTI ID:2477478

; Schomer, Rebecca; Reyes, María José Rodríguez;

; Parales, Rebecca E.; Whitaker, Rachel;

; Maresca, ed., Julia A.

ABSTRACT Hyphomicrobium are facultative denitrifying anaerobes capable of using one-carbon compounds as a sole carbon source. Hyphomicrobium sp. G-191 was enriched from Cedar Swamp, Woods Hole, Massachusetts, using a selective medium for methanol-utilizing bacteria. We present two draft metagenome-assembled genomes (MAGs) of a Hyphomicrobium and a Methylophilus species.

View Journal Article

Cite

Export

Save

Sponsoring Organization:: USDOE

OSTI ID:: 2477478

Journal Information:: Microbiology Resource Announcements, Journal Name: Microbiology Resource Announcements Journal Issue: 12 Vol. 13; ISSN 2576-098X

Publisher:: American Society for MicrobiologyCopyright Statement

Country of Publication:: United States

Language:: English

References (14)

Studies on dissimilatory sulfate-reducing bacteria that decompose fatty acids: I. Isolation of new sulfate-reducing bacteria enriched with acetate from saline environments. Description of Desulfobacter postgatei gen. nov., sp. nov. Widdel, Friedrich; Pfennig, Norbert Archives of Microbiology, Vol. 129, Issue 5 https://doi.org/10.1007/BF00406470	journal	July 1981
CheckM2: a rapid, scalable and accurate tool for assessing microbial genome quality using machine learning Chklovski, Alex; Parks, Donovan H.; Woodcroft, Ben J. Nature Methods, Vol. 20, Issue 8 https://doi.org/10.1038/s41592-023-01940-w	journal	July 2023
GTDB-Tk v2: memory friendly classification with the genome taxonomy database Chaumeil, Pierre-Alain; Mussig, Aaron J.; Hugenholtz, Philip Bioinformatics, Vol. 38, Issue 23 https://doi.org/10.1093/bioinformatics/btac672	journal	October 2022
QUAST: quality assessment tool for genome assemblies Gurevich, Alexey; Saveliev, Vladislav; Vyahhi, Nikolay Bioinformatics, Vol. 29, Issue 8 https://doi.org/10.1093/bioinformatics/btt086	journal	February 2013
Prokka: rapid prokaryotic genome annotation Seemann, T. Bioinformatics, Vol. 30, Issue 14 https://doi.org/10.1093/bioinformatics/btu153	journal	March 2014
fastp: an ultra-fast all-in-one FASTQ preprocessor Chen, Shifu; Zhou, Yanqing; Chen, Yaru Bioinformatics, Vol. 34, Issue 17 https://doi.org/10.1093/bioinformatics/bty560	journal	September 2018
Twelve years of SAMtools and BCFtools Danecek, Petr; Bonfield, James K.; Liddle, Jennifer GigaScience, Vol. 10, Issue 2 https://doi.org/10.1093/gigascience/giab008	journal	January 2021
Methylophilus: A New Genus of Methanol-Utilizing Bacteria Jenkins, O.; Byrom, D.; Jones, D. International Journal of Systematic Bacteriology, Vol. 37, Issue 4 https://doi.org/10.1099/00207713-37-4-446	journal	October 1987
Characterization and Description of Hyphomicrobium denitrificans sp. nov. Urakami, T.; Sasaki, J.; Suzuki, K. -I. International Journal of Systematic Bacteriology, Vol. 45, Issue 3 https://doi.org/10.1099/00207713-45-3-528	journal	July 1995
metaSPAdes: a new versatile metagenomic assembler Nurk, Sergey; Meleshko, Dmitry; Korobeynikov, Anton Genome Research, Vol. 27, Issue 5 https://doi.org/10.1101/gr.213959.116	journal	March 2017
Initial soil microbiome composition and functioning predetermine future plant health Wei, Zhong; Gu, Yian; Friman, Ville-Petri Science Advances, Vol. 5, Issue 9 https://doi.org/10.1126/sciadv.aaw0759	journal	September 2019
Quantification of Hyphomicrobium Populations in Activated Sludge from an Industrial Wastewater Treatment System as Determined by 16S rRNA Analysis Layton, A. C.; Karanth, P. N.; Lajoie, C. A. Applied and Environmental Microbiology, Vol. 66, Issue 3 https://doi.org/10.1128/AEM.66.3.1167-1174.2000	journal	March 2000
The Expanding World of Methylotrophic Metabolism Chistoserdova, Ludmila; Kalyuzhnaya, Marina G.; Lidstrom, Mary E. Annual Review of Microbiology, Vol. 63, Issue 1 https://doi.org/10.1146/annurev.micro.091208.073600	journal	October 2009
MetaBAT 2: an adaptive binning algorithm for robust and efficient genome reconstruction from metagenome assemblies Kang, Dongwan D.; Li, Feng; Kirton, Edward PeerJ, Vol. 7 https://doi.org/10.7717/peerj.7359	journal	January 2019

Similar Records

Metagenome-assembled genomes of phytoplankton microbiomes from the Arctic and Atlantic Oceans

Journal Article · 2022 · Microbiome · OSTI ID:1865498

Duncan, Anthony; Barry, Kerrie; Daum, Chris; +11 more

Enrichable consortia of microbial symbionts degrade macroalgal polysaccharides in Kyphosus fish

Journal Article · 2024 · mBio (Online) · OSTI ID:2329343

Oliver, Aaron; Podell, Sheila; Wegley Kelly, Linda; +9 more

Biases in genome reconstruction from metagenomic data

Journal Article · 2020 · PeerJ · OSTI ID:1693794

Nelson, William C.; Tully, Benjamin J.; Mobberley, Jennifer M.

Title: Metagenome-assembled genomes of freshwater Hyphomicrobium sp. G-191 and Methylophilus sp. enriched from Cedar Swamp, Woods Hole, MA

Citation Formats

References (14)

Similar Records

Related Subjects