Draft Genome Sequences of Two Hydrogenogenic Carboxydotrophic Bacteria, Carboxydocella sp. Strains JDF658 and ULO1, Isolated from Two Distinct Volcanic Fronts in Japan

Abstract

Hydrogenogenic carboxydotrophs may provide hydrogen as primary energy for the microbial community via carbon monoxide oxidation. To investigate the genetics of carbon monoxide metabolism, we report here the draft genome sequences of the hydrogenogenic carboxydotrophs Carboxydocella sp. strains JDF658 (2.60 Mbp; G+C content, 49.2%) and ULO1 (2.70 Mbp; G+C content, 48.8%).

Diversity and distribution of thermophilic hydrogenogenic carboxydotrophs revealed by microbial community analysis in sediments from multiple hydrothermal environments in Japan

“…At the Unagi-onsen hot spring (Southern Kyushu Island), we collected a total of 65 samples in May 2014, May 2015, November 2015, and December 2016 as a previous study suggested that Carboxydothermus species are abundant in this environment (Yoneda et al 2013a). In addition, we previously isolated the Carboxydocella strains ULO1 and JDF658 at Unagi-ike lake and the Jiunji-onsen hot spring, respectively (Fukuyama et al 2017). Temperature was measured using a TX10 digital thermometer (Yokogawa, Tokyo, Japan) with a type K temperature probe (Yokogawa, Tokyo, Japan) at each sampling site.…”

“…AM4Yes (Sokolova et al 2004b)Active chimneySokolova et al (2004b) Firmicutes (thermophilic) Parageobacillus thermoglucosidasius B4168n.rn.rn.r Parageobacillus thermoglucosidasius C56-YS93n.rn.rn.r Parageobacillus thermoglucosidasius DSM 2542 a Yes (Mohr et al 2018)n.rSuzuki et al (1983) Parageobacillus thermoglucosidasius GT23n.rn.rn.r Parageobacillus thermoglucosidasius NBRC 107763n.rn.rn.r Parageobacillus thermoglucosidasius NCIMB 11955n.rn.rn.r Parageobacillus thermoglucosidasius TG4Yes (Inoue et al 2019b)Marine sedimentInoue et al (2019a) Parageobacillus thermoglucosidasius TM242n.rn.rn.r Parageobacillus thermoglucosidasius TNO-09.020n.rn.rn.r Parageobacillus thermoglucosidasius Y4.1MC1n.rn.rn.r Carboxydocella sp. JDF658Yes (Fukuyama et al 2017)Open-air stream from a hot spring wellFukuyama et al (2017) Carboxydocella sp. ULO1Yes (Fukuyama et al 2017)Sediment of a maar lakeFukuyama et al (2017) Carboxydocella sporoproducens DSM 16521Yes (Slepova et al 2006)Hot springSlepova et al (2006) Carboxydocella thermautotrophica 019…”

“…JDF658Yes (Fukuyama et al 2017)Open-air stream from a hot spring wellFukuyama et al (2017) Carboxydocella sp. ULO1Yes (Fukuyama et al 2017)Sediment of a maar lakeFukuyama et al (2017) Carboxydocella sporoproducens DSM 16521Yes (Slepova et al 2006)Hot springSlepova et al (2006) Carboxydocella thermautotrophica 019Yes (Toshchakov et al 2018)Thermal fieldToshchakov et al (2018) Carboxydocella thermautotrophica 041Yes (Sokolova et al 2002)Terrestrial hot ventSokolova et al (2002) Desulfosporosinus sp. OLn.rn.rn.r Desulfotomaculum nigrificans CO-1-SRBYes (Parshina et al 2005)Anaerobic bioreactor sludgeSokolova et al (2009) Thermincola ferriacetica Z-0001Yes (Zavarzina et al 2007)Ferric deposits of a terrestrial hydrothermal springZavarzina et al (2007) Thermincola potens JRYes (Wrighton et al 2008; Byrne-Bailey et al 2010)Thermophilic microbial fuel cellWrighton et al (2008); Byrne-Bailey et al (2010) Caldanaerobacter subterraneus subsp.…”

Diversity analysis of thermophilic hydrogenogenic carboxydotrophs by carbon monoxide dehydrogenase amplicon sequencing using new primers

“…To verify that the newly designed primers amplify CODHech genes from environmental samples, we performed amplicon sequencing using these primers with the sediment samples collected from two hot springs (UN and JI), where thermophilic hydrogenogenic carboxydotrophs have been detected or isolated (Fukuyama et al 2017 ; Omae et al 2019 ; Yoneda et al 2012 , 2015 ). PCR amplification was observed for three (F4a_p1, F4c1_p1 and F4c1_p2) and two (F4a_p1 and F4c2_p1) of the six primer sets tested in UN and JI, respectively.…”

“…Cells of Carboxydocella sp. ULO1 and C. maritimus KKC1 were isolated and maintained in our laboratory (Fukuyama et al 2017 ; Yoneda et al 2013 ). The cells of C. hydrogenoformans Z-2901 and Carboxydocella sp.…”