PONE-D-20-37036

Genome-wide association mapping identifies Yellow Rust resistance locus in Ethiopian Durum Wheat germplasm

PLOS ONE

Dear Dr. Alemu,

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Aimin Zhang, Ph.D.

Academic Editor

PLOS ONE

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Reviewers' comments:

Reviewer's Responses to Questions

Comments to the Author

1. Is the manuscript technically sound, and do the data support the conclusions?

The manuscript must describe a technically sound piece of scientific research with data that supports the conclusions. Experiments must have been conducted rigorously, with appropriate controls, replication, and sample sizes. The conclusions must be drawn appropriately based on the data presented.

Reviewer #1: Partly

Reviewer #2: Partly

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2. Has the statistical analysis been performed appropriately and rigorously?

Reviewer #1: N/A

Reviewer #2: Yes

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3. Have the authors made all data underlying the findings in their manuscript fully available?

The PLOS Data policy requires authors to make all data underlying the findings described in their manuscript fully available without restriction, with rare exception (please refer to the Data Availability Statement in the manuscript PDF file). The data should be provided as part of the manuscript or its supporting information, or deposited to a public repository. For example, in addition to summary statistics, the data points behind means, medians and variance measures should be available. If there are restrictions on publicly sharing data—e.g. participant privacy or use of data from a third party—those must be specified.

Reviewer #1: No

Reviewer #2: Yes

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4. Is the manuscript presented in an intelligible fashion and written in standard English?

PLOS ONE does not copyedit accepted manuscripts, so the language in submitted articles must be clear, correct, and unambiguous. Any typographical or grammatical errors should be corrected at revision, so please note any specific errors here.

Reviewer #1: Yes

Reviewer #2: Yes

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5. Review Comments to the Author

Please use the space provided to explain your answers to the questions above. You may also include additional comments for the author, including concerns about dual publication, research ethics, or publication ethics. (Please upload your review as an attachment if it exceeds 20,000 characters)

Reviewer #1: This work conducted a genome wide association study of yellow rust resistance on 300 Ethiopian durum wheat accessions. The results are helpful to resistance breeding. My suggestions:

(1) please show the phenotype data of spreader to judge the quality of field resistance evaluation;

(2) please adding the phenotype data of analyzed wheat lines in Table S1, which is imporatant information for further genetics and breeding stduies.

(2) For SEV, 100% of the accessions were classified as resistant (0≤SEV≤10) at CHD_15 and 99.7% at KUL_15 . For RES, 96.6% of the accessions fell under resistant class at CHD_15 and 97.63% at KUL_15. The low Pst infestation can not provide useful information in following analysis, but makes the analysis complex and confusion. I suggested to discard the data of the two experiments in further analysis.

Other a few corrections in the attached file.

Reviewer #2: This manuscript reported genome-wide association mapping of yellow rust resistance locus in large number of Ethiopian Durum Wheat germplasms. The author identified 12 SNPs significantly associated with yellow rust resistance across four chromosomes, meanwhile this provides SNPs for tracking the QTL associated with yellow rust resistance in durum wheat improvement programs. However, several revision should be done before the manuscript can be accepted for publication.

1.After the introduction of Yr genes identification, please add some description of Yr genes that have been identified in Durum wheat in detail.

2.Please added some introduction of MAS of the Yr genes in Introduction.

3.Introduction part is too long. Please delete some unessential description.

4.If the germplasm resources in this study can be provided to the public, and where we can get?

5.In line 269, the the number “829100000” should be changed in to “829,100,000”

6.The Tables in this study should be changed into the “Three-line table” format.

7.If the elite resistant loci identified in this study have been transferred into susceptible cultivars in the production? If yes, please state it in Discussion

8.The References have Non-uniform format, please revised them meticulously.

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Reviewer #1: No

Reviewer #2: Yes: Pengtao Ma

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Attachments

Attachment

Submitted filename: PONE-D-20-37036_reviewer-2.pdf

Genome-wide association mapping identifies Yellow Rust resistance loci in Ethiopian Durum Wheat germplasm

PONE-D-20-37036R1

Dear Dr. Alemu,

We’re pleased to inform you that your manuscript has been judged scientifically suitable for publication and will be formally accepted for publication once it meets all outstanding technical requirements.

Within one week, you’ll receive an e-mail detailing the required amendments. When these have been addressed, you’ll receive a formal acceptance letter and your manuscript will be scheduled for publication.

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Kind regards,

Aimin Zhang, Ph.D.

Academic Editor

PLOS ONE

Additional Editor Comments (optional):

Reviewers' comments:

Reviewer's Responses to Questions

Comments to the Author

1. If the authors have adequately addressed your comments raised in a previous round of review and you feel that this manuscript is now acceptable for publication, you may indicate that here to bypass the “Comments to the Author” section, enter your conflict of interest statement in the “Confidential to Editor” section, and submit your "Accept" recommendation.

Reviewer #1: All comments have been addressed

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2. Is the manuscript technically sound, and do the data support the conclusions?

The manuscript must describe a technically sound piece of scientific research with data that supports the conclusions. Experiments must have been conducted rigorously, with appropriate controls, replication, and sample sizes. The conclusions must be drawn appropriately based on the data presented.

Reviewer #1: Yes

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3. Has the statistical analysis been performed appropriately and rigorously?

Reviewer #1: Yes

**********

4. Have the authors made all data underlying the findings in their manuscript fully available?

The PLOS Data policy requires authors to make all data underlying the findings described in their manuscript fully available without restriction, with rare exception (please refer to the Data Availability Statement in the manuscript PDF file). The data should be provided as part of the manuscript or its supporting information, or deposited to a public repository. For example, in addition to summary statistics, the data points behind means, medians and variance measures should be available. If there are restrictions on publicly sharing data—e.g. participant privacy or use of data from a third party—those must be specified.

Reviewer #1: Yes

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5. Is the manuscript presented in an intelligible fashion and written in standard English?

PLOS ONE does not copyedit accepted manuscripts, so the language in submitted articles must be clear, correct, and unambiguous. Any typographical or grammatical errors should be corrected at revision, so please note any specific errors here.

Reviewer #1: Yes

**********

6. Review Comments to the Author

Please use the space provided to explain your answers to the questions above. You may also include additional comments for the author, including concerns about dual publication, research ethics, or publication ethics. (Please upload your review as an attachment if it exceeds 20,000 characters)

Reviewer #1: (No Response)

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7. PLOS authors have the option to publish the peer review history of their article (what does this mean?). If published, this will include your full peer review and any attached files.

If you choose “no”, your identity will remain anonymous but your review may still be made public.

Do you want your identity to be public for this peer review? For information about this choice, including consent withdrawal, please see our Privacy Policy.

Reviewer #1: No