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Biogeography of Nocardiopsis strains from hypersaline environments of Yunnan and Xinjiang Provinces, western China.

He ST, Zhi XY, Jiang H, Yang LL, Wu JY, Zhang YG, Hozzein WN, Li WJ - Sci Rep (2015)

Bottom Line: Such information is essential for understanding the ecology of Nocardiopsis.Here we analyzed 16S rRNA, gyrB, rpoB and sodA genes of 78 Nocardiopsis strains isolated from hypersaline environments in Yunnan and Xinjiang Provinces of western China.Statistical analyses showed that spatial distance and environmental factors substantially influenced Nocardiopsis distribution in hypersaline environments: the former had stronger influence at large spatial scales, whereas the latter was more influential at small spatial scales.

View Article: PubMed Central - PubMed

Affiliation: State Key Laboratory of Biocontrol and Guangdong Key Laboratory of Plant Resources, College of Ecology and Evolution, Sun Yat-Sen University, Guangzhou, 510275, China.

ABSTRACT
The genus Nocardiopsis is a widespread group within the phylum Actinobacteria and has been isolated from various salty environments worldwide. However, little is known about whether biogeography affects Nocardiopsis distribution in various hypersaline environments. Such information is essential for understanding the ecology of Nocardiopsis. Here we analyzed 16S rRNA, gyrB, rpoB and sodA genes of 78 Nocardiopsis strains isolated from hypersaline environments in Yunnan and Xinjiang Provinces of western China. The obtained Nocardiopsis strains were classified into five operational taxonomic units, each comprising location-specific phylo- and genotypes. Statistical analyses showed that spatial distance and environmental factors substantially influenced Nocardiopsis distribution in hypersaline environments: the former had stronger influence at large spatial scales, whereas the latter was more influential at small spatial scales.

No MeSH data available.


Maximum Likelihood based Phylogenetic tree of concatenated sequences of 16S rRNA, gyrB, rpoB and sodA, showing endemism for five Nocardiopsis OTUs.Bar, 0.05, five nucleotide substitutions per 100 nt. Bootstrap values are shown as percentage of 1000 replicates, and only the bootstrap values above 50% are shown. Solid squares (■), upright triangles (▲), inverse triangles (▼) and diamonds (♦) indicate Nocardiopsis strains from Qijiaojing (QJJ) and Aydingkol (AK) sampling sites of Xinjiang Province and Jiangcheng (JC) and Heijing (HJ) sampling sites of Yunnan Province, respectively. The 34 STs are marked in the clades, and each ST is supported by high bootstrap value (>80%).
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f2: Maximum Likelihood based Phylogenetic tree of concatenated sequences of 16S rRNA, gyrB, rpoB and sodA, showing endemism for five Nocardiopsis OTUs.Bar, 0.05, five nucleotide substitutions per 100 nt. Bootstrap values are shown as percentage of 1000 replicates, and only the bootstrap values above 50% are shown. Solid squares (■), upright triangles (▲), inverse triangles (▼) and diamonds (♦) indicate Nocardiopsis strains from Qijiaojing (QJJ) and Aydingkol (AK) sampling sites of Xinjiang Province and Jiangcheng (JC) and Heijing (HJ) sampling sites of Yunnan Province, respectively. The 34 STs are marked in the clades, and each ST is supported by high bootstrap value (>80%).

Mentions: A total of 78 Nocardiopsis strains were retrieved and subjected to phenotypic characterization as well as OTU identification26. The obtained Nocardiopsis strains belonged to five OTUs (N. dassonvillei, N. aegyptia, N. terrea, N. quinghaiensis, and N. xinjiangensis) (Table S3). Each of the identified OTUs covered more than eight strains and contained at least one strain from a sampling site (Table S3). The multi-locus sequence typing (MLST) phylogeny showed endemism of Nocardiopsis strains: each endemic sequence type (ST) was specific to a site or a region (Table 1 and Fig. 2 & Fig. S1E, Bootstrap value >80%). A total of 34 STs (Table S4) were identified, with either region containing 17 STs and each sampling site including at least 8 STs (Table 1 & Table S5).


Biogeography of Nocardiopsis strains from hypersaline environments of Yunnan and Xinjiang Provinces, western China.

He ST, Zhi XY, Jiang H, Yang LL, Wu JY, Zhang YG, Hozzein WN, Li WJ - Sci Rep (2015)

Maximum Likelihood based Phylogenetic tree of concatenated sequences of 16S rRNA, gyrB, rpoB and sodA, showing endemism for five Nocardiopsis OTUs.Bar, 0.05, five nucleotide substitutions per 100 nt. Bootstrap values are shown as percentage of 1000 replicates, and only the bootstrap values above 50% are shown. Solid squares (■), upright triangles (▲), inverse triangles (▼) and diamonds (♦) indicate Nocardiopsis strains from Qijiaojing (QJJ) and Aydingkol (AK) sampling sites of Xinjiang Province and Jiangcheng (JC) and Heijing (HJ) sampling sites of Yunnan Province, respectively. The 34 STs are marked in the clades, and each ST is supported by high bootstrap value (>80%).
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4542603&req=5

f2: Maximum Likelihood based Phylogenetic tree of concatenated sequences of 16S rRNA, gyrB, rpoB and sodA, showing endemism for five Nocardiopsis OTUs.Bar, 0.05, five nucleotide substitutions per 100 nt. Bootstrap values are shown as percentage of 1000 replicates, and only the bootstrap values above 50% are shown. Solid squares (■), upright triangles (▲), inverse triangles (▼) and diamonds (♦) indicate Nocardiopsis strains from Qijiaojing (QJJ) and Aydingkol (AK) sampling sites of Xinjiang Province and Jiangcheng (JC) and Heijing (HJ) sampling sites of Yunnan Province, respectively. The 34 STs are marked in the clades, and each ST is supported by high bootstrap value (>80%).
Mentions: A total of 78 Nocardiopsis strains were retrieved and subjected to phenotypic characterization as well as OTU identification26. The obtained Nocardiopsis strains belonged to five OTUs (N. dassonvillei, N. aegyptia, N. terrea, N. quinghaiensis, and N. xinjiangensis) (Table S3). Each of the identified OTUs covered more than eight strains and contained at least one strain from a sampling site (Table S3). The multi-locus sequence typing (MLST) phylogeny showed endemism of Nocardiopsis strains: each endemic sequence type (ST) was specific to a site or a region (Table 1 and Fig. 2 & Fig. S1E, Bootstrap value >80%). A total of 34 STs (Table S4) were identified, with either region containing 17 STs and each sampling site including at least 8 STs (Table 1 & Table S5).

Bottom Line: Such information is essential for understanding the ecology of Nocardiopsis.Here we analyzed 16S rRNA, gyrB, rpoB and sodA genes of 78 Nocardiopsis strains isolated from hypersaline environments in Yunnan and Xinjiang Provinces of western China.Statistical analyses showed that spatial distance and environmental factors substantially influenced Nocardiopsis distribution in hypersaline environments: the former had stronger influence at large spatial scales, whereas the latter was more influential at small spatial scales.

View Article: PubMed Central - PubMed

Affiliation: State Key Laboratory of Biocontrol and Guangdong Key Laboratory of Plant Resources, College of Ecology and Evolution, Sun Yat-Sen University, Guangzhou, 510275, China.

ABSTRACT
The genus Nocardiopsis is a widespread group within the phylum Actinobacteria and has been isolated from various salty environments worldwide. However, little is known about whether biogeography affects Nocardiopsis distribution in various hypersaline environments. Such information is essential for understanding the ecology of Nocardiopsis. Here we analyzed 16S rRNA, gyrB, rpoB and sodA genes of 78 Nocardiopsis strains isolated from hypersaline environments in Yunnan and Xinjiang Provinces of western China. The obtained Nocardiopsis strains were classified into five operational taxonomic units, each comprising location-specific phylo- and genotypes. Statistical analyses showed that spatial distance and environmental factors substantially influenced Nocardiopsis distribution in hypersaline environments: the former had stronger influence at large spatial scales, whereas the latter was more influential at small spatial scales.

No MeSH data available.