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Xinfangfangia pollutisoli sp. nov., Isolated from Clopyralid-Contaminated Soil

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Abstract

With the aim of isolating clopyralid-degrading bacterial species for potential bioremediation, a pale-yellow, Gram-negative, rod-shaped, and non-motile designated as Clo-40T was isolated from soil which was about 10 years use of clopyralid in Zaozhuang city, Shandong province. Growth occurred within the ranges from 10 to 40 °C and 0–2.5% (w/v) NaCl. Strain could completely degrade 50 mg/L clopyralid within 2 days after induction and formed 3, 6-hydroxypicolinic acid, a major clopyralid metabolite, hydrolyze esculin, and reduce nitrates to nitrites, but could not hydrolyze gelatin. Based on phylogenetic analysis, strain clustered within the genus Xinfangfangia clade and branched with Xinfangfangia humi IMT-291T (97.6%) and Xinfangfangia soli ZQBWT (96.9%). Genome sequencing revealed a genome size of 4.41 Mbp and G + C content of 67.3%. The average nucleotide ANI values of strain with respect to X. humi IMT-291T and X. soli ZQBWT were 77.5% and 76.9%, respectively. The DDH estimated values between strain Clo-40T and X. humi IMT-291T and X. soli ZQBWT were 20.5% and 20.0%, respectively. The predominant fatty acids (> 5% of the total fatty acids) were C18:1 w7c (42.9%), C16:0 (28.8%), C17:0 cyclo (13.0%), and C14:0 (7.0%). The major polar lipids were identified as phosphatidylethanolamine, phosphatidylglycerol, unidentified phospholipid, unidentified glycolipid, and unidentified lipids. The predominant respiratory quinone was Q-10. Based on data from phenotypic, chemotaxonomic, and genotypic analyses in this study, strain Clo-40T represent a novel species in the genus of Xinfangfangia, for which the name Xinfangfangia pollutisoli sp. nov. is proposed. The type strain is Clo-40T (= KCTC 92089T = GDMCC 1.2845T).

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Abbreviations

KCTC:

Korean Collection for Type Cultures

GDMCC:

Guangdong Microbial Culture Collection Center

ANI:

Average nucleotide identity

COG:

Cluster of orthologous groups

Dddh:

Digital DNA–DNA hybridization

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Acknowledgements

This work was funded by grants from the Natural science foundation of Shandong Province (ZR2021MC115), Shandong Provincial University Youth Innovation and Technology Program (2020KJE008 and 2019KJE020), the Science and Technology Development Program of Zaozhuang (2020NS09), and the project of ‟Qingtan Scholars” of Zaozhuang University.

Funding

This work was funded by grants from the Natural science foundation of Shandong Province (ZR2021MC115), Shandong Provincial University Youth Innovation and Technology Program (2020KJE008 and 2019KJE020), the Science and Technology Development Program of Zaozhuang (2020NS09), and the project of “Qingtan Scholars” of Zaozhuang University.

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  1. Yang Mu and Jia-Yi Peng have contributed equally to this work.

Authors and Affiliations

  1. College of Life Sciences, Zaozhuang University, Zaozhuang, 277160, People’s Republic of China

    Jia-Yi Peng, Hui-Ping Wang, Yue Song, Hong-Mei Wang & Qing Chen

  2. Department of Microbiology, Key Lab of Microbiological Engineering of Agricultural Environment, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing, 210095, People’s Republic of China

    Yang Mu & Kai Chen

  3. Taizhou Center for Disease Prevention and Control, Taizhou, 225300, People’s Republic of China

    Yang Mu

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Contributions

Material preparation, data collection, and analysis were performed by [YM] and [JP]; material preparation and data collection were performed by [HW] and [YS]; data collection and analysis were performed by [HW]. Original draft preparation and reviewing and editing of the manuscript were performed by [QC]. All authors read and approved the final manuscript.

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Correspondence to Qing Chen.

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The GenBank accession numbers for its 16S rRNA gene sequence and draft genome sequences are MZ695045 and JAICBZ000000000, respectively

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Mu, Y., Peng, JY., Wang, HP. et al. Xinfangfangia pollutisoli sp. nov., Isolated from Clopyralid-Contaminated Soil. Curr Microbiol 79, 255 (2022). https://doi.org/10.1007/s00284-022-02958-7

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