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Characteristics and Diversity of Endophytic Bacteria in Endangered Chinese Herb Glehnia littoralis Based on Illumina Sequencing Cover

Characteristics and Diversity of Endophytic Bacteria in Endangered Chinese Herb Glehnia littoralis Based on Illumina Sequencing

Polish Journal of Microbiology
Volume 69 (2020): Issue 3 (September 2020)
By: XIAOWEI HUO,  YUE WANG,  DAWEI ZHANG,  TING GAO and  MENGMENG LIU  
Open Access
|Sep 2020

Figures & Tables

Fig. 1.

Rarefaction curves based on the Shannon index OUT level. Error bars represent the standard error of four replicates.
Rarefaction curves based on the Shannon index OUT level. Error bars represent the standard error of four replicates.

Fig. 2.

Venn diagram showing the OTUs shared among different samples associated with G. littoralis.
Venn diagram showing the OTUs shared among different samples associated with G. littoralis.

Fig. 3.

The bacterial abundance of different tissues at the phylum level.
The bacterial abundance of different tissues at the phylum level.

Fig. 4.

Heatmap displaying the relative abundances of the most dominant genera (top 50) in each sample. The dendrogram represents complete-linkage agglomerative clustering, based on Euclidean dissimilarities.
Heatmap displaying the relative abundances of the most dominant genera (top 50) in each sample. The dendrogram represents complete-linkage agglomerative clustering, based on Euclidean dissimilarities.

Fig. 5.

Statistical comparison of the relative abundance at the family level by the Kruskal-Wallis H test. P < 0.05 was considered statistically significant.
Statistical comparison of the relative abundance at the family level by the Kruskal-Wallis H test. P < 0.05 was considered statistically significant.

Fig. 6.

Hierarchical cluster analysis of different microbiota in different samples using pairwise weighted UniFrac distances. L1, L2, L3, L4, four repetitions of the leaf; S1, S2, S3, S4, four repetitions of the stem; R1, R2, R3, R4, four repetitions of the root.
Hierarchical cluster analysis of different microbiota in different samples using pairwise weighted UniFrac distances. L1, L2, L3, L4, four repetitions of the leaf; S1, S2, S3, S4, four repetitions of the stem; R1, R2, R3, R4, four repetitions of the root.

Fig. 7.

Principal coordinate analysis (PCoA) based on Bray-Curtis dissimilarity between different samples.
Principal coordinate analysis (PCoA) based on Bray-Curtis dissimilarity between different samples.

Characteristics of effective tags from samples of endophytic bacteria and rhizosphere bacteria associated with G_ littoralis_

SampleSample siteNumber of tagsTotal length (bp)Average length (bp)Effective (%)
Leaf1161,49124,250,81639486.74
Leaf2270,53927,826,64739487.38
Leaf3372,50228,614,92639480.78
Leaf4456,67922,401,39339571.51
Stem1174,17629,259,67039485.41
Stem2271,88328,374,40839479.27
Stem3373,23228,877,13839466.46
Stem4468,97127,201,00639481.54
Root1174,70529,478,19139479.50
Root2270,45627,847,10539570.56
Root3353,18321,019,55039572.88
Root4472,01728,464,45939573.40

Operational taxonomic unit (OTU) richness and diversity indices of different samples associated with G_ littoralis with a 97% similarity cut-off_

Sample nameOTUs observedShannonChao1ACECoverage (%)
Leaf526 ± 34 b3.58 ± 0.43 b600 ± 66 b599 ± 69 b99.6
Steam555 ± 22 b3.73 ± 0.39 b613 ± 82 b616 ± 77 b99.6
Root694 ± 19 a4.60 ± 0.19 a803 ± 40 a818 ± 42 a99.6

The Adonis analysis of the difference among samples associated with G_ littoralis_

TissuesLeafStem
RootR2 = 0.68, p = 0.027R2 = 0.46, p = 0.041
StemR2 = 0.09, p = 0.748
DOI: https://doi.org/10.33073/pjm-2020-031 | Journal eISSN: 2544-4646 | Journal ISSN: 1733-1331
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Language: English
Page range: 283 - 291
Submitted on: Apr 17, 2020
Accepted on: Jun 19, 2020
Published on: Sep 8, 2020
Published by: Polish Society of Microbiologists
In partnership with: Paradigm Publishing Services
Publication frequency: 4 issues per year
Keywords:
halophyte,
endophytic bacteria,
diversity,
Illumina sequencing
Related subjects:
Life sciences,
Microbiology and virology

© 2020 XIAOWEI HUO, YUE WANG, DAWEI ZHANG, TING GAO, MENGMENG LIU, published by Polish Society of Microbiologists
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License.

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