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Comparative genomics across three ensifer species using a new complete genome sequence of the Medicago symbiont Sinorhizobium (Ensifer) meliloti WSM1022

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Baxter, Laura, Roy, Proyash, Picot, Emma, Watts, Jess, Jones, Alexandra M., Wilkinson, Helen, Schäfer, Patrick, Gifford, Miriam L. and Lagunas, Beatriz (2021) Comparative genomics across three ensifer species using a new complete genome sequence of the Medicago symbiont Sinorhizobium (Ensifer) meliloti WSM1022. Microorganisms, 9 (12). 2428. doi:10.3390/microorganisms9122428

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Official URL: https://doi.org/10.3390/microorganisms9122428

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Abstract

Here, we report an improved and complete genome sequence of Sinorhizobium (Ensifer) meliloti strain WSM1022, a microsymbiont of Medicago species, revealing its tripartite structure. This improved genome sequence was generated combining Illumina and Oxford nanopore sequencing technologies to better understand the symbiotic properties of the bacterium. The 6.75 Mb WSM1022 genome consists of three scaffolds, corresponding to a chromosome (3.70 Mb) and the pSymA (1.38 Mb) and pSymB (1.66 Mb) megaplasmids. The assembly has an average GC content of 62.2% and a mean coverage of 77X. Genome annotation of WSM1022 predicted 6058 protein coding sequences (CDSs), 202 pseudogenes, 9 rRNAs (3 each of 5S, 16S, and 23S), 55 tRNAs, and 4 ncRNAs. We compared the genome of WSM1022 to two other rhizobial strains, closely related Sinorhizobium (Ensifer) meliloti Sm1021 and Sinorhizobium (Ensifer) medicae WSM419. Both WSM1022 and WSM419 species are high-efficiency rhizobial strains when in symbiosis with Medicago truncatula, whereas Sm1021 is ineffective. Our findings report significant genomic differences across the three strains with some similarities between the meliloti strains and some others between the high efficiency strains WSM1022 and WSM419. The addition of this high-quality rhizobial genome sequence in conjunction with comparative analyses will help to unravel the features that make a rhizobial symbiont highly efficient for nitrogen fixation.

Item Type: Journal Article
Subjects: Q Science > QH Natural history
Q Science > QR Microbiology
Divisions: Faculty of Science > Life Sciences (2010- )
Library of Congress Subject Headings (LCSH): Rhizobium, Nitrogen-fixing microorganisms, Genomics, Genomics -- Data processing
Journal or Publication Title: Microorganisms
Publisher: MDPI
ISSN: 2076-2607
Official Date: 25 November 2021
Dates:
DateEvent
25 November 2021Published
18 November 2021Accepted
Volume: 9
Number: 12
Article Number: 2428
DOI: 10.3390/microorganisms9122428
Status: Peer Reviewed
Publication Status: Published
Access rights to Published version: Open Access
RIOXX Funder/Project Grant:
Project/Grant IDRIOXX Funder NameFunder ID
09LFRN05University of Warwickhttp://dx.doi.org/10.13039/501100000741

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