Phenylobacterium soli sp. nov., isolated from arsenic and cadmium contaminated farmland soil
A Gram-stain-negative, facultative anaerobic, non-motile and rod-shaped bacterial strain, designated LX32 , was isolated from arsenic and cadmium contaminated farmland soil. Phylogenetic analysis based on 16S rRNA gene sequence indicated that strain LX32 was closely related to Phenylobacterium hanky...
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| Published in | International journal of systematic and evolutionary microbiology Vol. 69; no. 5; pp. 1398 - 1403 |
|---|---|
| Main Authors | , , , , , , |
| Format | Journal Article |
| Language | English |
| Published |
England
01.05.2019
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| Subjects | |
| Online Access | Get full text |
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| Abstract | A Gram-stain-negative, facultative anaerobic, non-motile and rod-shaped bacterial strain, designated LX32
, was isolated from arsenic and cadmium contaminated farmland soil. Phylogenetic analysis based on 16S rRNA gene sequence indicated that strain LX32
was closely related to Phenylobacterium hankyongense HKS-05
(97.7 % sequence similarity), Phenylobacterium kunshanense CCTCC AB 2013085
(97.4 %) and Phenylobacterium deserti CCTCC AB 2016297
(97.1 %). The average nucleotide identity values of the whole genome sequences of LX32
/P. hankyongense HKS-05
, LX32
/P. kunshanense CCTCC AB 2013085
and LX32
/P. deserti CCTCC AB 2016297
were 79.8, 77.9 and 77.5 %, respectively. Its genome size was 4.02 Mb, comprising 3998 predicted genes with a DNA G+C content of 70.1 mol%. The major fatty acids were C15 : 0, C16 : 0 and summed feature 8 (comprising C18 : 1ω7c and/or C18 : 1ω6c). The polar lipid profiles consisted of phosphatidylglycerol, aminophospholipid, seven glycolipids and two unidentified polar lipids. The predominantly respiratory quinone was ubiquinone-10. Based on polyphasic analyses, the isolate is considered to represent a novel species of the genus Phenylobacterium, for which the name Phenylobacterium soli sp. nov. is proposed. The type strain is LX32
(=KCTC 62522=CCTCC AB 2018055). |
|---|---|
| AbstractList | A Gram-stain-negative, facultative anaerobic, non-motile and rod-shaped bacterial strain, designated LX32
, was isolated from arsenic and cadmium contaminated farmland soil. Phylogenetic analysis based on 16S rRNA gene sequence indicated that strain LX32
was closely related to Phenylobacterium hankyongense HKS-05
(97.7 % sequence similarity), Phenylobacterium kunshanense CCTCC AB 2013085
(97.4 %) and Phenylobacterium deserti CCTCC AB 2016297
(97.1 %). The average nucleotide identity values of the whole genome sequences of LX32
/P. hankyongense HKS-05
, LX32
/P. kunshanense CCTCC AB 2013085
and LX32
/P. deserti CCTCC AB 2016297
were 79.8, 77.9 and 77.5 %, respectively. Its genome size was 4.02 Mb, comprising 3998 predicted genes with a DNA G+C content of 70.1 mol%. The major fatty acids were C15 : 0, C16 : 0 and summed feature 8 (comprising C18 : 1ω7c and/or C18 : 1ω6c). The polar lipid profiles consisted of phosphatidylglycerol, aminophospholipid, seven glycolipids and two unidentified polar lipids. The predominantly respiratory quinone was ubiquinone-10. Based on polyphasic analyses, the isolate is considered to represent a novel species of the genus Phenylobacterium, for which the name Phenylobacterium soli sp. nov. is proposed. The type strain is LX32
(=KCTC 62522=CCTCC AB 2018055). A Gram-stain-negative, facultative anaerobic, non-motile and rod-shaped bacterial strain, designated LX32T, was isolated from arsenic and cadmium contaminated farmland soil. Phylogenetic analysis based on 16S rRNA gene sequence indicated that strain LX32T was closely related to Phenylobacterium hankyongense HKS-05T (97.7 % sequence similarity), Phenylobacterium kunshanense CCTCC AB 2013085T (97.4 %) and Phenylobacterium deserti CCTCC AB 2016297T (97.1 %). The average nucleotide identity values of the whole genome sequences of LX32T/P. hankyongense HKS-05T, LX32T/P. kunshanense CCTCC AB 2013085T and LX32T/P. deserti CCTCC AB 2016297T were 79.8, 77.9 and 77.5 %, respectively. Its genome size was 4.02 Mb, comprising 3998 predicted genes with a DNA G+C content of 70.1 mol%. The major fatty acids were C15 : 0, C16 : 0 and summed feature 8 (comprising C18 : 1ω7c and/or C18 : 1ω6c). The polar lipid profiles consisted of phosphatidylglycerol, aminophospholipid, seven glycolipids and two unidentified polar lipids. The predominantly respiratory quinone was ubiquinone-10. Based on polyphasic analyses, the isolate is considered to represent a novel species of the genus Phenylobacterium, for which the name Phenylobacterium soli sp. nov. is proposed. The type strain is LX32T (=KCTC 62522=CCTCC AB 2018055).A Gram-stain-negative, facultative anaerobic, non-motile and rod-shaped bacterial strain, designated LX32T, was isolated from arsenic and cadmium contaminated farmland soil. Phylogenetic analysis based on 16S rRNA gene sequence indicated that strain LX32T was closely related to Phenylobacterium hankyongense HKS-05T (97.7 % sequence similarity), Phenylobacterium kunshanense CCTCC AB 2013085T (97.4 %) and Phenylobacterium deserti CCTCC AB 2016297T (97.1 %). The average nucleotide identity values of the whole genome sequences of LX32T/P. hankyongense HKS-05T, LX32T/P. kunshanense CCTCC AB 2013085T and LX32T/P. deserti CCTCC AB 2016297T were 79.8, 77.9 and 77.5 %, respectively. Its genome size was 4.02 Mb, comprising 3998 predicted genes with a DNA G+C content of 70.1 mol%. The major fatty acids were C15 : 0, C16 : 0 and summed feature 8 (comprising C18 : 1ω7c and/or C18 : 1ω6c). The polar lipid profiles consisted of phosphatidylglycerol, aminophospholipid, seven glycolipids and two unidentified polar lipids. The predominantly respiratory quinone was ubiquinone-10. Based on polyphasic analyses, the isolate is considered to represent a novel species of the genus Phenylobacterium, for which the name Phenylobacterium soli sp. nov. is proposed. The type strain is LX32T (=KCTC 62522=CCTCC AB 2018055). |
| Author | Wang, Gejiao Choi, Lina Li, Mingshun Wu, Minghan Li, Xuexue Yu, Ying Song, Yali |
| Author_xml | – sequence: 1 givenname: Xuexue surname: Li fullname: Li, Xuexue organization: State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, PR China – sequence: 2 givenname: Ying surname: Yu fullname: Yu, Ying organization: State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, PR China – sequence: 3 givenname: Lina surname: Choi fullname: Choi, Lina organization: State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, PR China – sequence: 4 givenname: Yali surname: Song fullname: Song, Yali organization: State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, PR China – sequence: 5 givenname: Minghan surname: Wu fullname: Wu, Minghan organization: State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, PR China – sequence: 6 givenname: Gejiao surname: Wang fullname: Wang, Gejiao organization: State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, PR China – sequence: 7 givenname: Mingshun surname: Li fullname: Li, Mingshun organization: State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, PR China |
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| CitedBy_id | crossref_primary_10_3389_fmicb_2023_1193189 crossref_primary_10_1016_j_aspen_2022_101895 crossref_primary_10_1099_ijsem_0_003645 crossref_primary_10_3389_fmicb_2023_1123790 crossref_primary_10_1099_ijsem_0_004367 crossref_primary_10_3390_tropicalmed9100249 crossref_primary_10_3390_jpm11111092 crossref_primary_10_1016_j_jece_2021_106533 crossref_primary_10_1016_j_jhazmat_2023_132544 crossref_primary_10_1099_ijsem_0_005375 crossref_primary_10_3390_su152416709 crossref_primary_10_1016_j_scitotenv_2023_167226 crossref_primary_10_1088_2515_7620_ad9435 crossref_primary_10_1186_s12934_023_02252_6 crossref_primary_10_1007_s12088_024_01412_5 |
| Cites_doi | 10.1099/00207713-35-1-26 10.1099/ijsem.0.002469 10.1099/ijs.0.63407-0 10.1016/0167-7012(84)90018-6 10.1007/BF01734359 10.1099/ijsem.0.002516 10.1099/ijs.0.063644-0 10.1099/ijs.0.65567-0 10.1099/ijs.0.64483-0 10.1099/ijsem.0.002366 10.1111/j.1365-2672.1973.tb04095.x 10.1007/BF01731581 10.1111/j.1558-5646.1985.tb00420.x 10.1073/pnas.0906412106 10.1038/75556 10.1111/j.1365-2672.1980.tb01036.x 10.1093/oxfordjournals.molbev.a040454 10.1099/ijs.0.63687-0 10.1099/ijs.0.038075-0 10.1093/molbev/msw054 10.1099/ijsem.0.001223 10.1093/nar/gkm321 10.1099/ijs.0.028902-0 10.1099/ijs.0.65530-0 10.1016/j.syapm.2005.02.005 10.1099/ijsem.0.001109 10.1111/j.1365-2672.2008.03790.x 10.1099/ijs.0.63138-0 10.1093/nar/25.24.4876 10.1099/ijs.0.054171-0 |
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| Keywords | contaminated farmland soil Phenylobacterium polyphasic taxonomy |
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| References | Kroppenstedt (R34) 1985; vol. 20 Sasser (R35) 1990 Smibert (R25) 1994 R20 R23 R22 Bernardet (R21) 2002; 52 R27 R26 R29 R28 R1 R2 R3 R4 R5 R6 Cappuccino (R24) 2002 R7 R8 R9 R30 R10 R32 R31 R12 R11 R33 R14 R13 R16 R15 R18 R17 R19 |
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| Snippet | A Gram-stain-negative, facultative anaerobic, non-motile and rod-shaped bacterial strain, designated LX32
, was isolated from arsenic and cadmium contaminated... A Gram-stain-negative, facultative anaerobic, non-motile and rod-shaped bacterial strain, designated LX32T, was isolated from arsenic and cadmium contaminated... |
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| Title | Phenylobacterium soli sp. nov., isolated from arsenic and cadmium contaminated farmland soil |
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