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Research article
Maozhen Han
Corresponding Author
ORCiD: https://orcid.org/0000-0002-5958-1941
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Background: Studies on the rhizosphere microbiome of various plants proved that rhizosphere microbiota carries out various vital functions and can regulate the growth and improve the yield of plants. However, the rhizosphere microbiome of commercial blueberry was only reported by a few studies and remains elusive. Comparison and interpretation of the characteristics of the rhizosphere microbiome of blueberry are critical important to maintain its health.
Results: In this study, a total of 20 rhizosphere soil samples, including 15 rhizosphere soil samples from three different blueberry varieties and five bulk soil samples, were sequenced with a high-throughput sequencing strategy. Based on these sequencing datasets, we profiled the taxonomical, functional, and phenotypic compositions of rhizosphere microbial communities for three different blueberry varieties and compared our results with a previous study focused on the rhizosphere microbiome of blueberry varieties. Our results demonstrated significant differences in alpha diversity and beta diversity of rhizosphere microbial communities of different blueberry varieties and bulk soil. The distribution patterns of taxonomical, functional, and phenotypic compositions of rhizosphere microbiome differ across the blueberry varieties. The rhizosphere microbial communities of three different blueberry varieties could be distinctly separated, and 28 discriminative biomarkers were selected to distinguish these three blueberry varieties. Core rhizosphere microbiota for blueberry was identified, and it contained 201 OTUs, which were mainly affiliated with Proteobacteria, Actinobacteria, and Acidobacteria. Moreover, the interactions between OTUs of blueberry rhizosphere microbial communities were explored by a co-occurrence network of OTUs from an ecological perspective.
Conclusions: This pilot study explored the characteristics of blueberry’s rhizosphere microbial community, such as the beneficial microorganisms and core microbiome, and provided an integrative perspective on blueberry’s rhizosphere microbiome, which beneficial to blueberry health and production.
Keywords
Rhizosphere microbial community, Rhizosphere microbiome, Blueberry, Biomarkers, Co-occurrence network
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This is a list of supplementary files associated with this preprint. Click to download.
- Supplementarymaterials.pdf
Supplementary Figure 1. Taxonomical composition of rhizosphere microbial communities in three blueberry varieties at the order and genus levels. Linear discriminant analysis was performed to maximize the separation of the rhizosphere microbial communities of three blueberry varieties and bulk soil based on the taxonomical composition at a: the order level and b: the genus level. The length and direction of the arrows represent the normalized scaling for each predominant phylum. Supplementary Figure 2. Functional composition of rhizosphere microbial communities in three blueberry varieties at the level two of the KEGG database. a: The functional composition of each rhizosphere microbial community at the level two of the KEGG database. b: The average functional traits of each rhizosphere microbial community of the three blueberry varieties and bulk soil. Supplementary Figure 3. Sampling schematic for collecting the rhizosphere soil samples of three blueberry varieties and bulk soil samples. Supplementary Table 1. Number of processed sequencing reads and estimates for the diversity of each microbial community. Supplementary Table 2. Information of core OTUs in rhizosphere microbial communities of three different blueberry varieties.
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View the published article at BMC Microbiology.
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On 08 Oct, 2020
Review #1 received
Received 22 Sep, 2020
Reviewer #1 agreed
On 18 Sep, 2020
Reviewers invited
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On 08 Sep, 2020
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See the published version of this preprint at BMC Microbiology.
This is a preprint, a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Learn more about In Review
Research article
Maozhen Han
Corresponding Author
ORCiD: https://orcid.org/0000-0002-5958-1941
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
Peer Review Timeline
CURRENT STATUS: Published
View the published article at BMC Microbiology.
Version 4
Posted 21 Jan, 2021
No community comments so far
Editorial decision: Accept
On 14 Jan, 2021
Editor assigned
On 13 Jan, 2021
Submission checks complete
On 13 Jan, 2021
Editor invited
On 13 Jan, 2021
No comments provided
Editorial decision: Minor revision
On 11 Jan, 2021
Editor assigned
On 21 Dec, 2020
Submission checks complete
On 21 Dec, 2020
Editor invited
On 21 Dec, 2020
No comments provided
Editorial decision: Minor revision
On 09 Dec, 2020
Review #2 received
Received 28 Nov, 2020
Reviewer #3 agreed
On 21 Nov, 2020
Reviewer #2 agreed
On 21 Nov, 2020
Reviewer #1 agreed
On 15 Nov, 2020
Review #1 received
Received 15 Nov, 2020
Reviewers invited
Invitations sent on 14 Nov, 2020
Editor assigned
On 11 Nov, 2020
Submission checks complete
On 11 Nov, 2020
Editor invited
On 11 Nov, 2020
No comments provided
Editorial decision: Major revision
On 08 Oct, 2020
Review #1 received
Received 22 Sep, 2020
Reviewer #1 agreed
On 18 Sep, 2020
Reviewers invited
Invitations sent on 17 Sep, 2020
Editor assigned
On 08 Sep, 2020
Submission checks complete
On 07 Sep, 2020
Editor invited
On 07 Sep, 2020
First submitted
On 05 Sep, 2020
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
General Microbiology
License:
This work is licensed under a CC BY 4.0 License. Read Full License
View the published article at BMC Microbiology.
Background: Studies on the rhizosphere microbiome of various plants proved that rhizosphere microbiota carries out various vital functions and can regulate the growth and improve the yield of plants. However, the rhizosphere microbiome of commercial blueberry was only reported by a few studies and remains elusive. Comparison and interpretation of the characteristics of the rhizosphere microbiome of blueberry are critical important to maintain its health.
Results: In this study, a total of 20 rhizosphere soil samples, including 15 rhizosphere soil samples from three different blueberry varieties and five bulk soil samples, were sequenced with a high-throughput sequencing strategy. Based on these sequencing datasets, we profiled the taxonomical, functional, and phenotypic compositions of rhizosphere microbial communities for three different blueberry varieties and compared our results with a previous study focused on the rhizosphere microbiome of blueberry varieties. Our results demonstrated significant differences in alpha diversity and beta diversity of rhizosphere microbial communities of different blueberry varieties and bulk soil. The distribution patterns of taxonomical, functional, and phenotypic compositions of rhizosphere microbiome differ across the blueberry varieties. The rhizosphere microbial communities of three different blueberry varieties could be distinctly separated, and 28 discriminative biomarkers were selected to distinguish these three blueberry varieties. Core rhizosphere microbiota for blueberry was identified, and it contained 201 OTUs, which were mainly affiliated with Proteobacteria, Actinobacteria, and Acidobacteria. Moreover, the interactions between OTUs of blueberry rhizosphere microbial communities were explored by a co-occurrence network of OTUs from an ecological perspective.
Conclusions: This pilot study explored the characteristics of blueberry’s rhizosphere microbial community, such as the beneficial microorganisms and core microbiome, and provided an integrative perspective on blueberry’s rhizosphere microbiome, which beneficial to blueberry health and production.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
This is a list of supplementary files associated with this preprint. Click to download.
- Supplementarymaterials.pdf
Supplementary Figure 1. Taxonomical composition of rhizosphere microbial communities in three blueberry varieties at the order and genus levels. Linear discriminant analysis was performed to maximize the separation of the rhizosphere microbial communities of three blueberry varieties and bulk soil based on the taxonomical composition at a: the order level and b: the genus level. The length and direction of the arrows represent the normalized scaling for each predominant phylum. Supplementary Figure 2. Functional composition of rhizosphere microbial communities in three blueberry varieties at the level two of the KEGG database. a: The functional composition of each rhizosphere microbial community at the level two of the KEGG database. b: The average functional traits of each rhizosphere microbial community of the three blueberry varieties and bulk soil. Supplementary Figure 3. Sampling schematic for collecting the rhizosphere soil samples of three blueberry varieties and bulk soil samples. Supplementary Table 1. Number of processed sequencing reads and estimates for the diversity of each microbial community. Supplementary Table 2. Information of core OTUs in rhizosphere microbial communities of three different blueberry varieties.
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