Bacterial Diversity Associated With the Rhizosphere and Endosphere of Two Halophytes: Glaux maritima and Salicornia europaea
Root-associated microbial communities are very important in the adaptation of halophytes to coastal environments. However, little has been reported on microbial community structures related to halophytes, or on comparisons of their compositions among halophytic plant species. Here, we studied the di...
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| Published in | Frontiers in microbiology Vol. 9; p. 2878 |
|---|---|
| Main Authors | , , , , , , , , , |
| Format | Journal Article |
| Language | English |
| Published |
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Frontiers Media S.A
28.11.2018
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| Abstract | Root-associated microbial communities are very important in the adaptation of halophytes to coastal environments. However, little has been reported on microbial community structures related to halophytes, or on comparisons of their compositions among halophytic plant species. Here, we studied the diversity and community structure of both rhizosphere and root endosphere bacteria in two halophytic plants:
and
. We sampled the rhizosphere, the root endosphere, and bulk control soil samples, and performed bacterial 16S rRNA sequencing using the Illumina MiSeq platform to characterize the bacterial community diversities in the rhizosphere and root endosphere of both halophytes. Among the
.
samples, the richness and diversity of bacteria in the rhizosphere were higher than those in the root endosphere but were lower than those of the bulk soil. In contrast for
.
, the bulk soil, the rhizosphere, and the root endosphere all had similar bacterial richness and diversity. The number of unique operational taxonomic units within the root endosphere, the rhizosphere, and the bulk soil were 181, 366, and 924 in
.
and 126, 416, and 596 in
.
, respectively, implying habitat-specific patterns for each halophyte. In total, 35 phyla and 566 genera were identified. The dominant phyla across all samples were
and
.
was extremely abundant in the root endosphere from
.
. Beneficial bacterial genera were enriched in the root endosphere and rhizosphere in both halophytes.
,
, and
were highly abundant in
.
, whereas
and
were highly abundant in
.
A principal coordinate analysis demonstrated significant differences in the microbiota composition associated with the plant species and type of sample. These results strongly indicate that there are clear differences in bacterial community structure and diversity between
.
and
.
. This is the first report to characterize the root microbiome of
.
, and to compare the diversity and community structure of rhizosphere and root endosphere bacteria between
.
and
.
. |
|---|---|
| AbstractList | Root-associated microbial communities are very important in the adaptation of halophytes to coastal environments. However, little has been reported on microbial community structures related to halophytes, or on comparisons of their compositions among halophytic plant species. Here, we studied the diversity and community structure of both rhizosphere and root endosphere bacteria in two halophytic plants: Glaux maritima and Salicornia europaea. We sampled the rhizosphere, the root endosphere, and bulk control soil samples, and performed bacterial 16S rRNA sequencing using the Illumina MiSeq platform to characterize the bacterial community diversities in the rhizosphere and root endosphere of both halophytes. Among the G. maritima samples, the richness and diversity of bacteria in the rhizosphere were higher than those in the root endosphere but were lower than those of the bulk soil. In contrast for S. europaea, the bulk soil, the rhizosphere, and the root endosphere all had similar bacterial richness and diversity. The number of unique operational taxonomic units within the root endosphere, the rhizosphere, and the bulk soil were 181, 366, and 924 in G. maritima and 126, 416, and 596 in S. europaea, respectively, implying habitat-specific patterns for each halophyte. In total, 35 phyla and 566 genera were identified. The dominant phyla across all samples were Proteobacteria and Bacteroidetes. Actinobacteria was extremely abundant in the root endosphere from G. maritima. Beneficial bacterial genera were enriched in the root endosphere and rhizosphere in both halophytes. Rhizobium, Actinoplanes, and Marinomonas were highly abundant in G. maritima, whereas Sulfurimonas and Coleofasciculus were highly abundant in S. europaea. A principal coordinate analysis demonstrated significant differences in the microbiota composition associated with the plant species and type of sample. These results strongly indicate that there are clear differences in bacterial community structure and diversity between G. maritima and S. europaea. This is the first report to characterize the root microbiome of G. maritima, and to compare the diversity and community structure of rhizosphere and root endosphere bacteria between G. maritima and S. europaea.Root-associated microbial communities are very important in the adaptation of halophytes to coastal environments. However, little has been reported on microbial community structures related to halophytes, or on comparisons of their compositions among halophytic plant species. Here, we studied the diversity and community structure of both rhizosphere and root endosphere bacteria in two halophytic plants: Glaux maritima and Salicornia europaea. We sampled the rhizosphere, the root endosphere, and bulk control soil samples, and performed bacterial 16S rRNA sequencing using the Illumina MiSeq platform to characterize the bacterial community diversities in the rhizosphere and root endosphere of both halophytes. Among the G. maritima samples, the richness and diversity of bacteria in the rhizosphere were higher than those in the root endosphere but were lower than those of the bulk soil. In contrast for S. europaea, the bulk soil, the rhizosphere, and the root endosphere all had similar bacterial richness and diversity. The number of unique operational taxonomic units within the root endosphere, the rhizosphere, and the bulk soil were 181, 366, and 924 in G. maritima and 126, 416, and 596 in S. europaea, respectively, implying habitat-specific patterns for each halophyte. In total, 35 phyla and 566 genera were identified. The dominant phyla across all samples were Proteobacteria and Bacteroidetes. Actinobacteria was extremely abundant in the root endosphere from G. maritima. Beneficial bacterial genera were enriched in the root endosphere and rhizosphere in both halophytes. Rhizobium, Actinoplanes, and Marinomonas were highly abundant in G. maritima, whereas Sulfurimonas and Coleofasciculus were highly abundant in S. europaea. A principal coordinate analysis demonstrated significant differences in the microbiota composition associated with the plant species and type of sample. These results strongly indicate that there are clear differences in bacterial community structure and diversity between G. maritima and S. europaea. This is the first report to characterize the root microbiome of G. maritima, and to compare the diversity and community structure of rhizosphere and root endosphere bacteria between G. maritima and S. europaea. Root-associated microbial communities are very important in the adaptation of halophytes to coastal environments. However, little has been reported on microbial community structures related to halophytes, or on comparisons of their compositions among halophytic plant species. Here, we studied the diversity and community structure of both rhizosphere and root endosphere bacteria in two halophytic plants: and . We sampled the rhizosphere, the root endosphere, and bulk control soil samples, and performed bacterial 16S rRNA sequencing using the Illumina MiSeq platform to characterize the bacterial community diversities in the rhizosphere and root endosphere of both halophytes. Among the . samples, the richness and diversity of bacteria in the rhizosphere were higher than those in the root endosphere but were lower than those of the bulk soil. In contrast for . , the bulk soil, the rhizosphere, and the root endosphere all had similar bacterial richness and diversity. The number of unique operational taxonomic units within the root endosphere, the rhizosphere, and the bulk soil were 181, 366, and 924 in . and 126, 416, and 596 in . , respectively, implying habitat-specific patterns for each halophyte. In total, 35 phyla and 566 genera were identified. The dominant phyla across all samples were and . was extremely abundant in the root endosphere from . . Beneficial bacterial genera were enriched in the root endosphere and rhizosphere in both halophytes. , , and were highly abundant in . , whereas and were highly abundant in . A principal coordinate analysis demonstrated significant differences in the microbiota composition associated with the plant species and type of sample. These results strongly indicate that there are clear differences in bacterial community structure and diversity between . and . . This is the first report to characterize the root microbiome of . , and to compare the diversity and community structure of rhizosphere and root endosphere bacteria between . and . . Root-associated microbial communities are very important in the adaptation of halophytes to coastal environments. However, little has been reported on microbial community structures related to halophytes, or on comparisons of their compositions among halophytic plant species. Here, we studied the diversity and community structure of both rhizosphere and root endosphere bacteria in two halophytic plants: Glaux maritima and Salicornia europaea. We sampled the rhizosphere, the root endosphere, and bulk control soil samples, and performed bacterial 16S rRNA sequencing using the Illumina MiSeq platform to characterize the bacterial community diversities in the rhizosphere and root endosphere of both halophytes. Among the G. maritima samples, the richness and diversity of bacteria in the rhizosphere were higher than those in the root endosphere but were lower than those of the bulk soil. In contrast for S. europaea, the bulk soil, the rhizosphere, and the root endosphere all had similar bacterial richness and diversity. The number of unique operational taxonomic units within the root endosphere, the rhizosphere, and the bulk soil were 181, 366, and 924 in G. maritima and 126, 416, and 596 in S. europaea, respectively, implying habitat-specific patterns for each halophyte. In total, 35 phyla and 566 genera were identified. The dominant phyla across all samples were Proteobacteria and Bacteroidetes. Actinobacteria was extremely abundant in the root endosphere from G. maritima. Beneficial bacterial genera were enriched in the root endosphere and rhizosphere in both halophytes. Rhizobium, Actinoplanes, and Marinomonas were highly abundant in G. maritima, whereas Sulfurimonas and Coleofasciculus were highly abundant in S. europaea. A principal coordinate analysis demonstrated significant differences in the microbiota composition associated with the plant species and type of sample. These results strongly indicate that there are clear differences in bacterial community structure and diversity between G. maritima and S. europaea. This is the first report to characterize the root microbiome of G. maritima, and to compare the diversity and community structure of rhizosphere and root endosphere bacteria between G. maritima and S. europaea. Root-associated microbial communities are very important in the adaptation of halophytes to coastal environments. However, little has been reported on microbial community structures related to halophytes, or on comparisons of their compositions among halophytic plant species. Here, we studied the diversity and community structure of both rhizosphere and root endosphere bacteria in two halophytic plants: Glaux maritima and Salicornia europaea . We sampled the rhizosphere, the root endosphere, and bulk control soil samples, and performed bacterial 16S rRNA sequencing using the Illumina MiSeq platform to characterize the bacterial community diversities in the rhizosphere and root endosphere of both halophytes. Among the G . maritima samples, the richness and diversity of bacteria in the rhizosphere were higher than those in the root endosphere but were lower than those of the bulk soil. In contrast for S . europaea , the bulk soil, the rhizosphere, and the root endosphere all had similar bacterial richness and diversity. The number of unique operational taxonomic units within the root endosphere, the rhizosphere, and the bulk soil were 181, 366, and 924 in G . maritima and 126, 416, and 596 in S . europaea , respectively, implying habitat-specific patterns for each halophyte. In total, 35 phyla and 566 genera were identified. The dominant phyla across all samples were Proteobacteria and Bacteroidetes . Actinobacteria was extremely abundant in the root endosphere from G . maritima . Beneficial bacterial genera were enriched in the root endosphere and rhizosphere in both halophytes. Rhizobium , Actinoplanes , and Marinomonas were highly abundant in G . maritima , whereas Sulfurimonas and Coleofasciculus were highly abundant in S . europaea. A principal coordinate analysis demonstrated significant differences in the microbiota composition associated with the plant species and type of sample. These results strongly indicate that there are clear differences in bacterial community structure and diversity between G . maritima and S . europaea . This is the first report to characterize the root microbiome of G . maritima , and to compare the diversity and community structure of rhizosphere and root endosphere bacteria between G . maritima and S . europaea . |
| Author | Tsushima, Seiya Ishige, Taichiro Tanaka, Keisuke Uchino, Masataka Tanaka, Naoto Shiwa, Yuh Sakamoto, Hikaru Oguri, Suguru Saitoh, Hiromasa Yamamoto, Kosuke |
| AuthorAffiliation | 2 NODAI Genome Research Center, Tokyo University of Agriculture , Tokyo , Japan 1 Department of Molecular Microbiology, Faculty of Life Sciences, Tokyo University of Agriculture , Tokyo , Japan 3 Department of Northern Biosphere Agriculture, Faculty of Bioindustry, Tokyo University of Agriculture , Hokkaido , Japan |
| AuthorAffiliation_xml | – name: 2 NODAI Genome Research Center, Tokyo University of Agriculture , Tokyo , Japan – name: 3 Department of Northern Biosphere Agriculture, Faculty of Bioindustry, Tokyo University of Agriculture , Hokkaido , Japan – name: 1 Department of Molecular Microbiology, Faculty of Life Sciences, Tokyo University of Agriculture , Tokyo , Japan |
| Author_xml | – sequence: 1 givenname: Kosuke surname: Yamamoto fullname: Yamamoto, Kosuke – sequence: 2 givenname: Yuh surname: Shiwa fullname: Shiwa, Yuh – sequence: 3 givenname: Taichiro surname: Ishige fullname: Ishige, Taichiro – sequence: 4 givenname: Hikaru surname: Sakamoto fullname: Sakamoto, Hikaru – sequence: 5 givenname: Keisuke surname: Tanaka fullname: Tanaka, Keisuke – sequence: 6 givenname: Masataka surname: Uchino fullname: Uchino, Masataka – sequence: 7 givenname: Naoto surname: Tanaka fullname: Tanaka, Naoto – sequence: 8 givenname: Suguru surname: Oguri fullname: Oguri, Suguru – sequence: 9 givenname: Hiromasa surname: Saitoh fullname: Saitoh, Hiromasa – sequence: 10 givenname: Seiya surname: Tsushima fullname: Tsushima, Seiya |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/30555434$$D View this record in MEDLINE/PubMed |
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| Copyright | Copyright © 2018 Yamamoto, Shiwa, Ishige, Sakamoto, Tanaka, Uchino, Tanaka, Oguri, Saitoh and Tsushima. 2018 Yamamoto, Shiwa, Ishige, Sakamoto, Tanaka, Uchino, Tanaka, Oguri, Saitoh and Tsushima |
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| Keywords | bacterial diversity 16S rRNA Salicornia europaea halophyte metagenome Glaux maritima rhizosphere bacteria endophytic bacteria |
| Language | English |
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| SubjectTerms | bacterial diversity endophytic bacteria Glaux maritima halophyte Microbiology rhizosphere bacteria Salicornia europaea |
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| Title | Bacterial Diversity Associated With the Rhizosphere and Endosphere of Two Halophytes: Glaux maritima and Salicornia europaea |
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