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Diversity analysis and function prediction of rhizo- and endophytic bacterial communities of Senecio vulgaris L. (Asteraceae) in an invasive range

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Diversity analysis and function prediction of rhizo- and endophytic bacterial communities of Senecio vulgaris L. (Asteraceae) in an invasive range https://t.co/lQG5Z7REw2
Diversity analysis and function prediction of rhizo- and endophytic bacterial communities of Senecio vulgaris L. (Asteraceae) in an invasive range https://t.co/PSJ3QH1W34
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Supplemental Information

Minimum and Maximum temperature in March and April 2016 in Shennongjia

Data of temperature were obtained from the local meteorological office.

DOI: 10.7287/peerj.preprints.26701v1/supp-1

The ten most abundant functional groups of bacterial communities associated with all samples and each compartment of Senecio vulgaris plants

DOI: 10.7287/peerj.preprints.26701v1/supp-2

Number of 16S rRNA gene sequences amplified from different plant compartments and sampling location

* contamination was from chloroplasts and mitochondria in the host plants

DOI: 10.7287/peerj.preprints.26701v1/supp-3

Number of 16S rRNA gene sequences annotated to different levels amplified from different plant compartments and sampling location

DOI: 10.7287/peerj.preprints.26701v1/supp-4

Core bacterial OTUs in leaf endosphere of Senecio vulgaris plants

/=unidentified taxa

DOI: 10.7287/peerj.preprints.26701v1/supp-5

Core bacterial OTUs in root endosphere of Senecio vulgaris plants

/=unidentified taxa

DOI: 10.7287/peerj.preprints.26701v1/supp-6

Function of Core bacterial OTUs in leaf endosphere of Senecio vulgaris plants

Reference:

Busse HJ, Denner EB, Buczolits S, Salkinoja-Salonen M, Bennasar A, and Kampfer P. 2003. Sphingomonas aurantiaca sp. nov., Sphingomonas aerolata sp. nov. and Sphingomonas faeni sp. nov., air- and dustborne and Antarctic, orange-pigmented, psychrotolerant bacteria, and emended description of the genus Sphingomonas. Int J Syst Evol Microbiol 53:1253-1260.

Hinić V, Lang C, Weisser M, Straub C, Frei R, and Goldenberger D. 2012. Corynebacterium tuberculostearicum: a potentially misidentified and multiresistant corynebacterium species isolated from clinical specimens. Journal of Clinical Microbiology 50:2561-2567.

Kumar VA, Augustine D, Panikar D, Nandakumar A, Dinesh KR, Karim S, and Philip R. 2011. Brevibacterium casei as a cause of brain abscess in an immunocompetent patient. Journal of Clinical Microbiology 49:4374-4376.

FAPROTAX: Downloaded from website http://www.zoology.ubc.ca/louca/FAPROTAX/lib/php/index.php?section=Home[p]

DOI: 10.7287/peerj.preprints.26701v1/supp-7

Function of Core bacterial OTUs in root endosphere of Senecio vulgaris plants

Reference:

Busse HJ, Denner EB, Buczolits S, Salkinoja-Salonen M, Bennasar A, and Kampfer P. 2003. Sphingomonas aurantiaca sp. nov., Sphingomonas aerolata sp. nov. and Sphingomonas faeni sp. nov., air- and dustborne and Antarctic, orange-pigmented, psychrotolerant bacteria, and emended description of the genus Sphingomonas. Int J Syst Evol Microbiol 53:1253-1260.

Zamora L, Vela AI, Palacios MA, Domínguez L, and Fernández-Garayzábal JF. 2012. First isolation and characterization of Chryseobacterium shigense from rainbow trout. BMC Veterinary Research 8:77. FAPROTAX: Downloaded from website http://www.zoology.ubc.ca/louca/FAPROTAX/lib/php/index.php?section=Home[p]

DOI: 10.7287/peerj.preprints.26701v1/supp-8

Sample name

Explanation for names of the samples used in this study

DOI: 10.7287/peerj.preprints.26701v1/supp-9

absolute abundunce of each OTU

This dataset shows number of reads annotated to OTUs. The rows are OTUs and the variables are samples. See explanations for them in the dataset "Sample name".

DOI: 10.7287/peerj.preprints.26701v1/supp-10

Relative abundunce of each OTU

This dataset shows abundunce percentage of each OTU in each sample. The rows are OTUs and the variables are samples. See explanations for them in the dataset "Sample name". The OTUs matching chloroplasts, mitochondrial or Viridiplantae were not in this dataset.

DOI: 10.7287/peerj.preprints.26701v1/supp-11

Alpha diversity indexes for each sample

DOI: 10.7287/peerj.preprints.26701v1/supp-12

relative abundance of OTUs associated with each function annotated by FAPROTAX

DOI: 10.7287/peerj.preprints.26701v1/supp-13

DNA sequence data of the bacteria OTUs identified from rhizospere and endosphere of Senecio vulgaris plants

DOI: 10.7287/peerj.preprints.26701v1/supp-14

Additional Information

Competing Interests

The authors declare there are no competing interests.

Author Contributions

Dandan Cheng conceived and designed the experiments, performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, prepared figures and/or tables, authored or reviewed drafts of the paper, approved the final draft.

Zhongsai Tian performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, prepared figures and/or tables, authored or reviewed drafts of the paper, approved the final draft.

Liang Feng authored or reviewed drafts of the paper, approved the final draft.

Lin Xu performed the experiments, contributed reagents/materials/analysis tools, authored or reviewed drafts of the paper, approved the final draft.

Hongmei Wang authored or reviewed drafts of the paper, approved the final draft.

DNA Deposition

The following information was supplied regarding the deposition of DNA sequences:

We have submitted the sequence data in NCBI GenBank and the data can been see on https://www.ncbi.nlm.nih.gov/nuccore/?term=MG274323:MG279042[accn]

The data is also uploaded as a Supplemental File.

Data Deposition

The following information was supplied regarding data availability:

1) NCBI GenBank

2)URL https://www.ncbi.nlm.nih.gov/nuccore/?term=MG274323:MG279042[accn]

Funding

This work is supported by National Natural Science Foundation of China (31570537 and 31200425) and the Fundamental Research Funds for the Central Universities (CUG130411) granted to Dandan Cheng. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.


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