20140717 Edanz Kyushu Session 7

Andrew Jackson, PhD

Senior Editor

Kyushu University Department of Agriculture

Session 7 – Communicating with Journals

Kyushu University

17 July 2014

Seminar series

June 5 Effective presentations

June 12 Reviewing the literature

June 19 Academic publishing

June 26 Research and publication ethics

July 3 Effective writing

July 10 Manuscript structure

July 17 Communicating with journals

July 24 Peer review and revisions

Journal selection

Section 1

Journal selection Timing

Choose your target journal:

– After you have decided you have enough results for a publication

– After you have decided on how high to aim—high, medium or low impact

– After you have decided how broadly relevant your findings are

– Before writing your manuscript

Journal selection Factors to consider

Aims & scope Readership

Open access Indexing

Which factor is most important to you?

Publication frequency

Impact factor

Journal selection Type of journals

Broad vs narrow- focused journals

International vs regional journals

Broad Findings have implications across fields

Narrow Findings have field-specific implications

International Findings have worldwide implications

Regional Findings are restricted by geographical

or ethnic boundaries

Journal selection Choosing a target journal

Significance Aims and Scope Impact

Journal selection must be based on an

honest evaluation of your findings

Journal selection

New findings

Evaluating significance: Novelty

Medium to high impact

Low to medium impact

Incremental advances

Conceptual advances

How new are my results compared with those already published?

Journal selection Evaluating significance: Relevance

How broadly relevant is your work?

Specific to country/region? Relevant to other areas (e.g., agriculture)?

Economics

Specific to cell-type or organism? Relevant to human condition?

Biology

How broadly applicable is the design? Is it cost-effective?

Engineering

International or regional journal?

Broad- or narrow- focused journal?

Journal selection Evaluating significance: Importance

Area of popular appeal

Stem cells, GM crops, global warming, artificial intelligence

Important real-world applications

Rice resistant to high salt conditions, shrimp resistant to viral infections

Journal selection

Insert your proposed abstract

Journal Selector www.edanzediting.co.jp/journal_selector

Journal selection

Recommended journals

Filter by: • Impact factor • Publishing frequency • Open access


Journal selection

Semantic matching terms

Journal’s aims & scope, IF, and publication frequency

Are they currently publishing similar articles?

Similar published articles

Have you cited any of these articles?


Journal selection Tips to identify the most suitable journal

S

Identify the interests of the journal editor

Identify the interests of the

readers

• Editorials • Review articles • Special issues

• Most viewed • Most cited

Author guidelines

Section 2

Author guidelines Visit journal websites

Author guidelines Navigation

Author guidelines Navigation

Author guidelines

>4500 words

>9700 words!

Navigation

Author guidelines Author Guidelines – Article structure

What are you looking for?

Preparation of manuscripts

Title page, abstract Keywords to

look for?

Important elements

• Article type specifics • Title page information • Abstract • Main text sections • References • Figures and Figure Legends

Author guidelines Word limits

Word limits may apply to:

• Titles • Running titles • Highlights • Abstracts • Main text • Figure legends

Author guidelines References

In-text citations Vancouver : [1] or 1

Harvard: (Name, year)

Reference list Vancouver : Numerical

Harvard: Alphabetical

Author guidelines

Planta

Harvard style

References

Author guidelines

The Plant Cell Harvard style

References

Author guidelines

Initials

Year

Journal title

Volume/pages

Punctuation

Bold/italics

Rice

The Plant Cell

Use reference management software!

References

Cover letters

Section 3

Cover letters

Abstract: First impression for readers

Significance Relevance

Writing style Interesting to their readers?

Is your work important?

Cover letters: First impression for journal editors

Cover letters

Dear Editor-in-Chief, I am sending you our manuscript entitled “Techniques to detect entanglement in cats” by Schrodinger et al. We would like to have the manuscript considered for publication in Quantum Theory Frontiers. Please let me know of your decision at your earliest convenience. Sincerely yours, Albert Einstein, PhD

Bad example

Too short

No information about the manuscript

Coverage and Staffing Plan Cover letters

Plant Molecular Biology is an international journal dedicated to rapid publication of original research articles in all areas of plant biology. The Editorial Board welcomes full-length manuscripts that address important biological problems of broad interest, including research in comparative genomics, functional genomics, proteomics, bioinformatics, computational biology, biochemical and regulatory networks, and biotechnology. Because space in the journal is limited, however, preference is given to publication of results that provide significant new insights into biological problems and that advance the understanding of structure, function, mechanisms, or regulation.

Plant Molecular Biology

Read the aims and scope


Read the aims and scope

Plant Molecular Biology is an international journal dedicated to rapid publication of original research articles in all areas of plant biology. The Editorial Board welcomes full-length manuscripts that address important biological problems of broad interest, including research in comparative genomics, functional genomics, proteomics, bioinformatics, computational biology, biochemical and regulatory networks, and biotechnology. Because space in the journal is limited, however, preference is given to publication of results that provide significant new insights into biological problems and that advance the understanding of structure, function, mechanisms, or regulation.

Plant Molecular Biology

Key points

Broad interest

Biological problems


Building your cover letter

Dr Wilhelm Gruissem Editor-in-Chief Plant Molecular Biology 17 July 2014 Dear Dr Gruissem, Please find enclosed our manuscript entitled “Identification of the histone acetyltransferase HAF2 as a factor involved in natural variation for seed dormancy in Arabidopsis thaliana”, which we would like to submit for publication as a Research Article in Plant Molecular Biology.

Journal editor’s name

Manuscript title

Publication type

Did you read the website carefully?

Aims and scope? Author guidelines?



Seed dormancy is an important life-history strategy that allows plants to select favorable conditions for germination, thereby affecting long-term survival. Dormancy can be released by specific environmental factors, such as cold or dry-storage (after-ripening). However, the genetic factors that regulate this process have not been clearly elucidated. The model plant Arabidopsis has substantial natural variation in seed dormancy, and identifying genes associated with this trait is of broad interest to geneticists, ecologists, and agricultural researchers.

Introduction Problem Relevance

Second paragraph:

Current state of the field Problem researchers are facing


We combined genome-wide association (GWA) mapping with transcriptome analyses to screen candidate single nucleotide polymorphisms correlated with variation in seed dormancy in 108 accessions of Arabidopsis. The most likely candidate was a plant-specific histone acetyltransferase gene, HAF2. HAF2 expression was down-regulated by cold and after-ripening, which break seed dormancy, and was up-regulated in accessions with high levels of dormancy. When the HAF2 gene from a non-dormant accession was inserted into a dormant accession…


Methods Key results

Third paragraph:

Briefly describe your methodology Summarize your key findings



These findings are significant in elucidating the genetic mechanisms underlying a fundamental life-history trait of plants and will be of interest to Plant Molecular Biology readers, especially those focused on Arabidopsis seed dormancy. Furthermore, our integrated approach combining GWA mapping and transcriptomics offers a promising strategy to identify candidate loci in future studies.

Relevance Implications

Fourth paragraph:

Why interesting to the journal’s readership



We confirm that this manuscript has not been published elsewhere and is not under consideration by another journal. All authors have approved the manuscript, including authorship and order of authorship, and agree with submission to Plant Molecular Biology. This study was funded by the Ministry of Health, Labour and Welfare. The authors have no conflicts of interest to declare.

Ethics Conflicts of interest

Last paragraph:

Disclaimers related to publication ethics Funding Conflicts of interest

Funding



We would like to recommend the following reviewers to evaluate our manuscript: 1. Reviewer 1 and contact information 2. Reviewer 2 and contact information 3. Reviewer 3 and contact information 4. Reviewer 4 and contact information Please address all correspondence to:

Reviewers Contact information

Other important information:

Recommended reviewers Author’s contact information

Coverage and Staffing Plan Cover letters A good cover letter

Dr Wilhelm Gruissem Editor-in-Chief Plant Molecular Biology 17 July 2014 Dear Dr Gruissem, Please find enclosed our manuscript entitled “Identification of the histone acetyltransferase HAF2 as a factor involved in natural variation for seed dormancy in Arabidopsis thaliana”, which we would like to submit for publication as a Research Article in Plant Molecular Biology. Seed dormancy is an important life-history strategy that allows plants to select favorable conditions for germination, thereby affecting long-term survival. Dormancy can be released by specific environmental factors, such as cold or dry-storage (after-ripening). The model plant Arabidopsis has substantial natural variation in seed dormancy, and identifying genes associated with this trait is of interest to geneticists, ecologists, and agricultural researchers. We combined genome-wide association (GWA) mapping with transcriptome analyses to screen candidate single nucleotide polymorphisms correlated with variation in seed dormancy in 108 accessions of Arabidopsis. The most likely candidate was a plant-specific histone acetyltransferase gene, HAF2. HAF2 expression was down-regulated by cold and after-ripening, which break seed dormancy, and was up-regulated in accessions with high levels of dormancy. When the HAF2 gene from a non-dormant accession was inserted into a dormant accession, seed dormancy was increased and HAF2 expression levels reduced. Finally, we sequenced HAF2 from 78 accessions and found that mutations were enriched in the promoter region. These findings are significant in elucidating the genetic mechanisms underlying a fundamental life-history trait of plants and will be of interest to Plant Molecular Biology readers, especially those focused on Arabidopsis seed dormancy. Furthermore, our integrated approach combining GWA mapping and transcriptomics offers a promising strategy to identify candidate loci in future studies. We confirm that this manuscript has not been published elsewhere and is not under consideration by another journal. All authors have approved the manuscript, including authorship and order of authorship, and agree with submission to Plant Molecular Biology. This study was funded by the Ministry of Health, Labour and Welfare. The authors have no conflicts of interest to declare. We would like to recommend the following reviewers to evaluate our manuscript: Reviewer 1 and contact information Reviewer 2 and contact information Reviewer 3 and contact information Reviewer 4 and contact information Please address all correspondence to: We look forward to hearing from you at your earliest convenience. Yours sincerely,


Dr Wilhelm Gruissem Editor-in-Chief Plant Molecular Biology 17 July 2014 Dear Dr Gruissem, Please find enclosed our manuscript entitled “Identification of the histone acetyltransferase HAF2 as a factor involved in natural variation for seed dormancy in Arabidopsis thaliana”, which we would like to submit for publication as a Research Article in Plant Molecular Biology. Seed dormancy is an important life-history strategy that allows plants to select favorable conditions for germination, thereby affecting long-term survival. Dormancy can be released by specific environmental factors, such as cold or dry-storage (after-ripening). The model plant Arabidopsis has substantial natural variation in seed dormancy, and identifying genes associated with this trait is of interest to geneticists, ecologists, and agricultural researchers. We combined genome-wide association (GWA) mapping with transcriptome analyses to screen candidate single nucleotide polymorphisms correlated with variation in seed dormancy in 108 accessions of Arabidopsis. The most likely candidate was a plant-specific histone acetyltransferase gene, HAF2. HAF2 expression was down-regulated by cold and after-ripening, which break seed dormancy, and was up-regulated in accessions with high levels of dormancy. When the HAF2 gene from a non-dormant accession was inserted into a dormant accession, seed dormancy was increased and HAF2 expression levels reduced. Finally, we sequenced HAF2 from 78 accessions and found that mutations were enriched in the promoter region. These findings are significant in elucidating the genetic mechanisms underlying a fundamental life-history trait of plants and will be of interest to Plant Molecular Biology readers, especially those focused on Arabidopsis seed dormancy. Furthermore, our integrated approach combining GWA mapping and transcriptomics offers a promising strategy to identify candidate loci in future studies. We confirm that this manuscript has not been published elsewhere and is not under consideration by another journal. All authors have approved the manuscript, including authorship and order of authorship, and agree with submission to Plant Molecular Biology. This study was funded by the Ministry of Health, Labour and Welfare. The authors have no conflicts of interest to declare. We would like to recommend the following reviewers to evaluate our manuscript: Reviewer 1 and contact information Reviewer 2 and contact information Reviewer 3 and contact information Reviewer 4 and contact information Please address all correspondence to: We look forward to hearing from you at your earliest convenience. Yours sincerely,

A good cover letter

Manuscript information

Background

Key findings

Relevance

Disclaimers

Recommended reviewers


Specific cover letter styles

http://www.nature.com/nature/authors/submissions/subs/#a6

Journal selection activities

Using the Journal Selector, find the most appropriate journal for the given abstract. Find two different journals (not PNAS):

• One with an impact factor of 5–10 (with open

access options)

• One with any impact factor and open access

For the first journal (IF 5–10 plus OA): 1. Who is the Editor-in-Chief?

2. What is the word limit of the abstract and

manuscript?

3. How much does OA cost?

Journal selection activity 1






manuscript?


Loren Rieseberg (Chief Editor)






manuscript?



Abstract < 250 words, main text < 8000 words



Search for “Open Access”

Search for “OnlineOpen”






manuscript?



Abstract < 250 words, main text < 8000 words

US$3000


Using the Journal Selector, find the most appropriate journal for the given abstract. Find two different journals:

• One with an impact factor of 5–10 (with open

access options)

• One with any impact factor and open access



For the second journal (any IF, but OA): How much does it cost?





“Why publish with PLOS ONE?”






For the second journal (any IF, but OA): How much does it cost?

Transgenic Research: US$3000 n

PLOS ONE: US$1350


Thank you!

Any questions?

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Jeffrey Robens: [email protected] Andrew Jackson: [email protected]

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20140717 Edanz Kyushu Session 7

Education