Li CJ, Zhang Z, Zhan PC, Lv AP, Li PP, Liu L, Li WJ, Yang LL*, Zhi XY*. Comparative genomic analysis and proposal of Clostridium yunnanense sp. nov., Clostridium rhizosphaerae sp. nov., and Clostridium paridis sp. nov., three novel Clostridium sensu stricto endophytes with diverse capabilities of acetic acid and ethanol production. Anaerobe. 79 (2023) 102686. DOI:10.1016/j.anaerobe.2022.102686
Tang SK†, Zhi XY†, Zhang Y†, Makarova K-S†, Liu BB†, Zheng GS, ..., Yang LL, ..., Koonin EV*, Zhao GP*, Xu P*. Cellular differentiation into hyphae and spores in halophilic archaea. Nat Commun. 2023 14:1827. DOI:10.1038/s41467-023-37389-w
Wang M†, Li CJ†, Zhang Z, Li PP, Yang LL, Zhi XY*. The evolution of morphological development is congruent with the species phylogeny in the genus Streptomyces. Front Microbiol. 2023 14:1102250. DOI:10.3389/fmicb.2023.1102250
2022
Zhan PC, Li CJ, Zhang Z, Mao RF, Liu JR, Jiang XW, Zhi XY, Yang LL*. Neobacillus paridis sp. nov., an endophyte of Paris polyphylla Smith var. yunnanensis. Arch Microbiol. 2022 204(2):129. DOI:10.1007/s00203-021-02753-1
Li CJ†, Wang M†, Zhang Z, Zhi XY, Yang LL*. Genome‐based analyses reveal heterotypic synonyms of Streptomyces species and associated subspecies. Arch Microbiol. 2022 204:581. DOI:10.1007/s00203-022-03204-1
Zhan PC†, Mao RF†, Li CJ, Zhang Z, Liu JR, Tang M, Zhi XY, Yang LL*. Azospirillum endophyticum sp. nov., an endophyte of Paris Polyphylla Smith var. yunnanensis. Curr Microbiol. 2023 80:34. DOI:10.1007/s00284-022-03142-7
2021
Zhang Z†, Yang LL†, Li CJ, Jiang XW, Zhi XY*. Chryseobacterium paridis sp. nov., an endophytic bacterial species isolated from the root of Paris polyphylla Smith var. yunnanensis. Arch Microbiol. 2021 203:4777–4783. DOI:10.1007/s00203-021-02504-2
2020
Wang M†, Jiang XW†, Tang SK, Zhi XY, Yang LL*. Paenibacillus paridis sp. nov., an Endophytic Bacterial Species Isolated From the Root of Paris polyphylla Smith var. yunnanensis. Int J Syst Evol Microbiol. 2020 70(3):1940-1946. DOI:10.1099/ijsem.0.003997
Tan W†, Liao TH†, Wang J, Ye Y, Wei YC, Zhou HK, Xiao Y, Zhi XY*, Zhao ZH*, Lyu LD*, Zhao GP*. A recently evolved diflavin-containing monomeric nitrate reductase is responsible for highly efficient bacterial nitrate assimilation. J Biol Chem. 2020 295(15):5051-5066. DOI:10.1074/jbc.RA120.012859
Yang LL, Zhi XY*. Reclassification of Friedmanniella endophytica, Lysinimicrobium sediminis, Lechevalieria rhizosphaerae as Microlunatus kandeliicorticis nom. nov., Demequina sediminis comb. nov., and Lentzea rhizosphaerae comb. nov. respectively. Int J Syst Evol Microbiol. 2020 70:3930-3931. DOI:10.1099/ijsem.0.004242
Yang LL, Jiang Z, Li Y, Wang ET, Zhi XY*. Plasmids related to the symbiotic nitrogen fixation are not only cooperated functionally, but also may have evolved over a time span in family Rhizobiaceae. Genome Biol Evol. 2020 12(11):2002-2014. DOI:10.1093/gbe/evaa152
Feng YZ†, Chunyu WX†, Liang Rui†, Hahnke RL, Schumann P, Zhao YR, Gao S, Yin M, Ji Y, Sun L, Zhi XY*, Tang SK*. Vallicoccus soli gen. nov., sp. nov., a novel actinobacterium isolated from soil, and description of Vallicoccaceae fam. nov., Motilibacterales ord. nov. Antonie Van Leeuwenhoek. 2020 113:2155-2165. DOI:10.1007/s10482-020-01484-5
2019
Jiang Z, Xiao M, Yang LL, Zhi XY*, Li WJ*. Genome-based taxonomic classification within the family Thermoactinomycetaceae. Int J Syst Evol Microbiol. 2019 69(7):2028-2036. DOI:10.1099/ijsem.0.003425
Feng YZ†, Yang LL†, Gao S, Ji Y, Yin M, Zhao YR, Chunyu WX, Li P, Zhi XY*, Tang SK*. Bailinhaonella thermotolerans gen. nov., sp. nov., a new member of the order Streptosporangiales. Int J Syst Evol Microbiol. 2019 69(7):1903-1909. DOI:10.1099/ijsem.0.003379
Khan IU, Habib N, Xiao M, Li MM, Xian WD, Hejazi MS, Tarhriz V, Zhi XY*, Li WJ*. Rhodobacter thermarum sp. nov., a novel phototrophic bacterium isolated from sediment of a hot spring. Antonie Van Leeuwenhoek. 2019 112(6):867-875. DOI:10.1007/s10482-018-01219-7
Khan IU, Habib N, Asem MD, Salam N, Xiao M, Zhou EM, Zhi XY*, Li WJ*. Aquabacterium tepidiphilum sp. nov., a moderately thermophilic bacterium isolated from a hot spring. Int J Syst Evol Microbiol. 2019 69(2):337-342. DOI:10.1099/ijsem.0.003103
Tang B, Yu Y, Liang J, Zhang Y, Bian X, Zhi XY*, Ding X*. Reclassification of 'Polyangium brachysporum' DSM 7029 as Schlegelella brevitalea sp. nov. Int J Syst Evol Microbiol. 2019 69(9):2877-2883. DOI:10.1099/ijsem.0.003571
2018
Habib N, Khan IU, Chu X, Xiao M, Li S, Fang BZ, Zhi XY*, Li WJ*. Actinoplanes deserti sp. nov., isolated from a desert soil sample. Antonie Van Leeuwenhoek. 2018 111(12):2303-2310. DOI:10.1007/s10482-018-1121-x
Khan IU, Habib N, Xiao M, Huang X, Khan NU, Im WT, Ahmed I, Zhi XY*, Li WJ*. Phenylobacterium terrae sp. nov., isolated from a soil sample of Khyber-Pakhtun-Khwa, Pakistan. Antonie Van Leeuwenhoek. 2018 111(10):1767-1775. DOI:10.1007/s10482-018-1064-2
Khan IU, Habib N, Xiao M, Devi AM, Habib M, Hejazi MS, Salam N, Zhi XY*, Li WJ*. Anoxybacillus sediminis sp. nov., a novel moderately thermophilic bacterium isolated from a hot spring. Antonie Van Leeuwenhoek. 2018 111(12):2275-2282. DOI:10.1007/s10482-018-1118-5
Habib N, Khan IU, Salam N, Xiao M, Ahmed I, Zhi XY*, Li WJ*. Tepidimonas Sediminis sp. nov. and Tepidimonas alkaliphilus sp. nov., two novel moderately thermophilic species isolated from a hot spring. Antonie Van Leeuwenhoek. 2018 111(7):1023-1031. DOI:10.1007/s10482-017-1002-8
2017
Khan IU, Hussain F, Habib N, Wadaan MAM, Ahmed I, Im WT, Hozzein WN, Zhi XY*, Li WJ*. Phenylobacterium deserti sp. nov., isolated from desert soil. Int J Syst Evol Microbiol. 2017 67(11):4722-4727. DOI:10.1099/ijsem.0.002366
Yin YR, Hu QW, Xian WD, Zhang F, Zhou EM, Ming H, Xiao M, Zhi XY*, Li WJ*. Characterization of a neutral recombinant xylanase from Thermoactinospora rubra YIM 77501T. Antonie Van Leeuwenhoek. 2017 110(3):429-436. DOI:10.1007/s10482-016-0798-y
Zhi XY*, Jiang Z, Yang LL, Huang Y. The underlying mechanisms of genetic innovation and speciation in the family Corynebacteriaceae: A phylogenomics approach. Mol Phylogenet Evol. 2017 107:246-255. DOI:10.1016/j.ympev.2016.11.009
Habib N, Khan IU, Hussain F, Zhou EM, Xiao M, Ahmed I, Zhi XY*, Li WJ*. Caldovatus sediminis gen. nov., sp. nov., a moderately thermophilic bacterium isolated from a hot spring. Int J Syst Evol Microbiol. 2017 67(11):4716-4721. DOI:10.1099/ijsem.0.002363
Khan IU, Hussain F, Habib N, Xiao M, Ahmed I, Amin A, Zhi XY*, Li WJ*. Nocardioides thalensis sp. nov., isolated from a desert. Int J Syst Evol Microbiol. 2017 67(8):2848-2852. DOI:10.1099/ijsem.0.002032
Khan IU, Habib N, Hussain F, Xian WD, Amin A, Zhou EM, Ahmed I, Zhi XY*, Li WJ*. Thermus caldifontis sp. nov., a thermophilic bacterium isolated from a hot spring. Int J Syst Evol Microbiol. 2017 67(8):2868-2872. DOI:10.1099/ijsem.0.002037
Habib N, Khan IU, Hussain F, Zhou EM, Xiao M, Dong L, Zhi XY*, Li WJ*. Meiothermus luteus sp. nov., a slightly thermophilic bacterium isolated from a hot spring. Int J Syst Evol Microbiol. 2017 67(8):2910-2914. DOI:10.1099/ijsem.0.002040
Yin YR†, Meng ZH†, Hu QW, Jiang Z, Xian WD, Li LH, Hu W, Zhang F, Zhou EM, Zhi XY*, Li WJ*. The Hybrid Strategy of Thermoactinospora rubra YIM 77501T for Utilizing Cellulose as a Carbon Source at Different Temperatures. Front Microbiol. 2017 8:942. DOI:10.3389/fmicb.2017.00942
Yuan CG, Chen X, Jiang Z, Chen W, Liu L, Xian WD, Asem MD, Zhi XY*, Li WJ*. Altererythrobacter lauratis sp. nov. and Altererythrobacter palmitatis sp. nov., isolated from a Tibetan hot spring. Antonie Van Leeuwenhoek. 2017 110(8):1077-1086. DOI:10.1007/s10482-017-0882-y
Khan IU, Hussain F, Tian Y, Habib N, Xian WD, Jiang Z, Amin A, Yuan CG, Zhou EM, Zhi XY*, Li WJ*. Tibeticola sediminis gen. nov., sp. nov., a thermophilic bacterium isolated from a hot spring. Int J Syst Evol Microbiol. 2017 67(5):1133-1139. DOI:10.1099/ijsem.0.001777
2016
Yuan CG, Jiang Z, Xiao M, Zhou EM, Kim CJ, Hozzein WN, Park DJ, Zhi XY*, Li WJ*. Mesorhizobium sediminum sp. nov., isolated from deep-sea sediment. Int J Syst Evol Microbiol. 2016 66(11):4797-4802. DOI:10.1099/ijsem.0.001432
Yang LL, Jiang Z, Tang SK, Chu X, Xu LH, Zhi XY*. Yimella radicis sp. nov., an endophytic actinobacterium isolated from the root of Paris polyphylla Smith var. yunnanensis. Int J Syst Evol Microbiol. 2016 66(10):4191-4196. DOI:10.1099/ijsem.0.001334
Jiang Z, Yuan CG, Xiao M, Tian XP, Khan IU, Kim CJ, Zhi XY*, Li WJ*. Abyssicoccus albus gen. nov., sp. nov., a novel member of the family Staphylococcaceae isolated from marine sediment of the Indian Ocean. Antonie Van Leeuwenhoek. 2016 109(8):1153-60. DOI:10.1007/s10482-016-0717-2
Yang LL, Tang SK, Chu X, Jiang Z, Xu LH, Zhi XY*. Oceanobacillus endoradicis sp. nov., an endophytic bacterial species isolated from the root of Paris polyphylla Smith var. yunnanensis. Antonie Van Leeuwenhoek. 2016 109(7):957-64. DOI:10.1007/s10482-016-0695-4
Hu QW, Chu X, Xiao M, Li CT, Yan ZF, Hozzein WN, Kim CJ, Zhi XY*, Li WJ*. Arthrobacter deserti sp. nov., isolated from a desert soil sample. Int J Syst Evol Microbiol. 2016 66(5):2035-2040. DOI:10.1099/ijsem.0.000986
Chu X, Li S, Chen W, Devi Asem M, Duan YQ, Nie GX, Hozzein WN, Zhi XY*, Li WJ*. Hamadaea flava sp. nov., isolated from a soil sample and emended description of the genus Hamadaea. Int J Syst Evol Microbiol. 2016 66(4):1818-1822. DOI:1099/ijsem.0.000949
2015
Yang LL, Tang SK, Huang Y, Zhi XY*. Low Temperature Adaptation Is Not the Opposite Process of High Temperature Adaptation in Terms of Changes in Amino Acid Composition. Genome Biol Evol. 2015 7(12):3426-33. DOI:10.1093/gbe/evv232
He ST†, Zhi XY†, Jiang H*, Yang LL, Wu JY, Zhang YG, Hozzein WN, Li WJ*. Biogeography of Nocardiopsis strains from hypersaline environments of Yunnan and Xinjiang Provinces, western China. Sci Rep. 2015 5:13323. DOI:10.1038/srep13323
2014
Zhi XY†*, Yao JC†, Li HW, Huang Y, Li WJ*. Genome-wide identification, domain architectures and phylogenetic analysis provide new insights into the early evolution of shikimate pathway in prokaryotes. Mol Phylogenet Evol. 2014 75:154-64. DOI:10.1016/j.ympev.2014.02.015
Zhi XY†*, Yao JC†, Tang SK, Huang Y, Li HW, Li WJ*. The futalosine pathway played an important role in menaquinone biosynthesis during early prokaryote evolution. Genome Biol Evol. 2014 6(1):149-60. DOI:10.1093/gbe/evu007
2013
Li HW†, Zhi XY†*, Yao JC, Zhou Y, Tang SK, Klenk HP, Zhao J, Li WJ*. Comparative genomic analysis of the genus Nocardiopsis provides new insights into its genetic mechanisms of environmental adaptability. PLoS One. 2013 8(4):e61528. DOI:10.1371/journal.pone.0061528
2012
Zhi XY†, Zhao W†, Li WJ, Zhao GP*. Prokaryotic systematics in the genomics era. Antonie Van Leeuwenhoek. 2012 101(1):21-34. DOI:10.1007/s10482-011-9667-x
2011
Zhi XY†, Zhao W†, Li WJ and Zhao GP*. Working towards a Molecular Systematics Library for Prokaryotes: a perspective. The Bulletin of BISMiS, 2011 2(2):125-134.
2010
Zhou J*, Deng Y, Luo F, He Z, Tu Q, Zhi X. Functional molecular ecological networks. mBio. 2010 1(4):e00169-10. DOI:10.1128/mBio.00169-10
2009
Zhi XY, Li WJ*, Stackebrandt E*. An update of the structure and 16S rRNA gene sequence-based definition of higher ranks of the class Actinobacteria, with the proposal of two new suborders and four new families and emended descriptions of the existing higher taxa. Int J Syst Evol Microbiol. 2009 59(3):589-608. DOI:10.1099/ijs.0.65780-0
2008
Yang LL, Tang SK, Zhang YQ, Zhi XY, Wang D, Xu LH, Li WJ*. Thermobifida halotolerans sp. nov., isolated from a salt mine sample, and emended description of the genus Thermobifida. Int J Syst Evol Microbiol. 2008 58(8):1821-5. DOI:10.1099/ijs.0.65732-0
Cai M†, Zhi XY†, Tang SK, Zhang YQ, Xu LH, Li WJ*. Streptomonospora halophila sp. nov., a halophilic actinomycete isolated from a hypersaline soil. Int J Syst Evol Microbiol. 2008 58(7):1556-60. DOI:10.1099/ijs.0.65513-0
2007
Zhi XY, Yang LL, Wu JY, Tang SK, Li WJ*. Multiplex specific PCR for identification of the genera Actinopolyspora and Streptomonospora, two groups of strictly halophilic filamentous actinomycetes. Extremophiles. 2007 11(3):543-8. DOI:10.1007/s00792-007-0066-1
Wang YX†, Zhi XY†, Chen HH, Zhang YQ, Tang SK, Jiang CL, Xu LH, Li WJ. Actinomadura alba sp. nov., isolated from soil in Yunnan, China. Int J Syst Evol Microbiol. 2007 57(8):1735-9. DOI:10.1099/ijs.0.64864-0
2006
Zhi XY, Tang SK, Li WJ, Xu LH, Jiang CL. New genus-specific primers for the PCR identification of novel isolates of the genus Streptomonospora. FEMS Microbiol Lett. 2006 263(1):48-53. DOI:10.1111/j.1574-6968.2006.00402.x
