Genetic diversity and community structure of rhizobia nodulating Sesbania cannabina in saline–alkaline soils

Li, Yan; Li, Xiangyue; Liu, Yajing; Wang, En Tao; Ren, Changliang; Liu, Wei; Xu, Hongwei; Wu, Hailong; Jiang, Nan; Li, Yunzhao; Zhang, Xiaoli; Xie, Zhihong

doi:10.1016/j.syapm.2016.02.004

Cited by 55 publications

(47 citation statements)

References 56 publications

(67 reference statements)

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“…1) and MLSA (Fig. 2) in this study confirmed the previous observation (Li et al, 2016) that the 120 strains belonging to four recA genotypes formed a unique group in Ensifer, differing from all the defined species. Furthermore, the phylogenetic relationship based on recA sequence alone was consistent with the relationships in MLSA (Figs 1 and S1), demonstrating that recA is an effective molecular marker for grouping a large number of isolates.…”

supporting

confidence: 91%

“…All the bacterial strains involved in this study (Table 1) were maintained on yeast malt agar (YMA) (Vincent, 1970) plate at 4 C for short-term storage and in yeast malt (YM) broth supplied with 20 % (v/v) glycerol at À80 C for long-term storage. In the previous study, the novel Ensifer group covering 120 strains of Sesbania cannabina rhizobia was defined by phylogenetic analyses of their recA gene (coding for DNA recombination and repair protein) and 16S rRNA gene, as well as multilocus sequence analysis (MLSA) of recA, atpD and glnII (Li et al, 2016). In the present study, recA phylogenetic tree for all the 120 novel strains, 16S rRNA phylogenetic tree and recA-atpD-glnII MLSA tree for the strains YIC4027, YIC4009, YIC4031 and YIC4032 representing the four recA types were reconstructed in comparison with the corresponding sequences for all the defined Ensifer species acquired from the GenBank database.…”

mentioning

confidence: 99%

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Ensifer alkalisoli sp. nov. isolated from root nodules of Sesbania cannabina grown in saline–alkaline soils

Yan

et al. 2016

International Journal of Systematic and Evolutionary Microbiology

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A group of Sesbania cannabina rhizobia belonging to four recA genotypes of a novel group was further characterized in comparison with the related Ensifer species. They showed 98.2 to 99.9 % similarities among themselves and 92.9 to 93.3 % similarities with the most related strain Ensifer sojae CCBAU 05684 T in multilocus sequence analysis of recA, atpD and glnII. The genome average nucleotide identity values between representative strain YIC4027 T and the type strains of its closely related species were 81.6 to 88.9 %. Identical symbiotic gene (nodA, nodC and nifH) sequences highly similar with those in other Sesbania-nodulating strains (Rhizobium sp. SIN-1, Neorhizobium huautlense S02 T , Ensifer saheli ORS609 T and Rhizobium sp. IRBG74) were detected. The representative strain YIC4027 T could form effective nodules on its original host Sesbania cannabina, but not on Sophora flavescens, Trifolium repens, Glycine max, Glycyrrhiza uralensis, Phaseolus vulgaris or Medicago sativa. The use of lactulose as sole carbon source, possession of C 13 : 0 2-OH, C 13 : 1 at 12-13, C 15 : 1 iso !9c, C 17 : 0 anteiso and C 18 : 0 iso and absence of C 14 : 0 anteiso, C 15 : 0 anteiso and C 18 : 0 3-OH in fatty acids distinguished the strain YIC4027 T from the type strains of its closely related species. Based on all the analyses mentioned above, we propose a novel species Ensifer alkalisoli sp. nov. and designate YIC4027 T (=HAMBI 3655 T =LMG 29286 T ) as the type strain. The genome size of YIC4027 T is 5.97 Mbp, comprising 5588 predicted genes, and the DNA G+C content is 62.2 mol%.

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confidence: 91%

mentioning

confidence: 99%

Ensifer alkalisoli sp. nov. isolated from root nodules of Sesbania cannabina grown in saline–alkaline soils

Yan

et al. 2016

International Journal of Systematic and Evolutionary Microbiology

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“…All the purified isolates were designated in order to amplify and sequence the recA gene, using the primers recA41F/recA640R [14]. All the recA sequences acquired in this study were aligned by using Clustal W software and the similarity between each sequence pair was calculated by using MEGA 5.05 software.…”

Section: Phylogenetic Analyses Of Housekeeping and Symbiotic Genesmentioning

confidence: 99%

“…Thus, MLSA was performed with combined sequences of the three housekeeping genes (recA, atpD and glnII), and the sequence similarities with reference strains were calculated as described above. Genospecies were defined based on the MLSA relationship using a 97% sequence similarity threshold, as suggested previously [5,14].…”

Section: Phylogenetic Analyses Of Housekeeping and Symbiotic Genesmentioning

confidence: 99%

“…Three replicates for each strain were used, and a blank control set was inoculated with 1 mL distilled water. All the plants were grown at 26 • C in an automated plant-growth room with a daylight illumination period of 12 h [14,15]. After 60 days growth, all the plants were harvested and the effective (nitrogen fixing) root nodules were identified by the red color of the root nodules and the dark-green leaves of the plants.…”

Section: Analysis Of Symbiotic Propertiesmentioning

confidence: 99%

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Rhizobium anhuiense as the predominant microsymbionts of Lathyrus maritimus along the Shandong Peninsula seashore line

Wang

Liu

et al. 2016

Systematic and Applied Microbiology

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a b s t r a c tBeach pea [Lathyrus maritimus Bigelow, or Lathyrus japonicus subsp. maritimus (L.) P.W. Ball] is a wild legume distributed on the seashore line, and the rhizobia nodulating with this plant have been reported only rarely. In order to reveal the diversity of beach pea rhizobia on the seashore line of Shandong Peninsula, China, a total of 124 bacterial strains were isolated from the root nodules of beach pea plants collected from five sites. All the isolates were divided into five recA types after screening by recA gene sequence analysis and they consisted of Rhizobium anhuiense covering 122 symbiotic isolates in three recA types, as well as two single isolates Rhizobium sp. and Rhizobium lusitanum representing distinct recA types. The recA genotype III of R. anhuiense (103 isolates) represented by strain YIC11270 was dominant at all five sampling sites. Identical symbiotic genes (nodC and nifH) were detected in the three recA genotypes of R. anhuiense isolates that were closely related to those of the pea and faba rhizobia. This study clarified that R. anhuiense was the main symbiont for beach pea rhizobia on the seashore line of Shandong Peninsula. The low level genetic diversity of beach pea rhizobia revealed by both MLSA and the symbiotic genes might be related to the strong selection pressure produced by the saline-alkaline environment and the host plants.

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Current Status of the Taxonomy of Bacteria Able to Establish Nitrogen-Fixing Legume Symbiosis

Velázquez

García‐Fraile

Ramírez-Bahena

et al. 2017

Microbes for Legume Improvement

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Genetic diversity and community structure of rhizobia nodulating Sesbania cannabina in saline–alkaline soils

Cited by 55 publications

References 56 publications

Ensifer alkalisoli sp. nov. isolated from root nodules of Sesbania cannabina grown in saline–alkaline soils

Ensifer alkalisoli sp. nov. isolated from root nodules of Sesbania cannabina grown in saline–alkaline soils

Rhizobium anhuiense as the predominant microsymbionts of Lathyrus maritimus along the Shandong Peninsula seashore line

Current Status of the Taxonomy of Bacteria Able to Establish Nitrogen-Fixing Legume Symbiosis

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