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Supplemental Information

Blast of the 1.8 kb sequences in G. raimondi genome

DOI: 10.7287/peerj.preprints.27806v1/supp-1

The location of the ICRd motifs and their constituents in genome

DOI: 10.7287/peerj.preprints.27806v1/supp-2

The structures of the LTR-TEs harboring the ICRd motif

DOI: 10.7287/peerj.preprints.27806v1/supp-3

The information of the two homologous segments

DOI: 10.7287/peerj.preprints.27806v1/supp-4

Blast results of the ICRd motif with tetraploid cotton

DOI: 10.7287/peerj.preprints.27806v1/supp-5

The whole alignment of the 72 LTR-TEs

DOI: 10.7287/peerj.preprints.27806v1/supp-6

Additional Information

Competing Interests

The authors declare that they have no competing interests.

Author Contributions

Hejun Lu conceived and designed the experiments, performed the experiments, analyzed the data, prepared figures and/or tables, authored or reviewed drafts of the paper, approved the final draft.

Xinglei Cui conceived and designed the experiments, performed the experiments, analyzed the data, prepared figures and/or tables, authored or reviewed drafts of the paper, approved the final draft.

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

Richard Odongo Magwang 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, data analysis and interperetation.

Pengcheng Li performed the experiments, contributed reagents/materials/analysis tools, approved the final draft, data collection.

Xiaoyan Cai performed the experiments, contributed reagents/materials/analysis tools, approved the final draft.

Zhongli Zhou performed the experiments, contributed reagents/materials/analysis tools, approved the final draft.

Xingxing Wang performed the experiments, contributed reagents/materials/analysis tools, approved the final draft.

Yuling Liu performed the experiments, contributed reagents/materials/analysis tools, approved the final draft.

Yanchao Xu performed the experiments, contributed reagents/materials/analysis tools, approved the final draft.

Yuqing Hou performed the experiments, contributed reagents/materials/analysis tools, approved the final draft.

Renhai Peng performed the experiments, contributed reagents/materials/analysis tools, approved the final draft.

Kunbo Wang conceived and designed the experiments, authored or reviewed drafts of the paper, approved the final draft.

Fang Liu conceived and designed the experiments, authored or reviewed drafts of the paper, approved the final draft.

Data Deposition

The following information was supplied regarding data availability:

The genome assemblies involved in this work of G. raimondii, G. arboreum, G. hirsutum are respectively downloaded from Cottongen and are available at :

https://www.cottongen.org/species/Gossypium_raimondii/jgi_genome_221

https://www.cottongen.org/species/Gossypium_arboreum/bgi-A2_genome_v2.0

https://www.cottongen.org/species/Gossypium_hirsutum/bgi-AD1_genome_v1.0

https://www.cottongen.org/species/Gossypium_hirsutum/nbi-AD1_genome_v1.1

https://www.cottongen.org/species/Gossypium_hirsutum/jgi-AD1_genome_v1.1

https://www.cottongen.org/species/Gossypium_barbadense/HAU-AD2_genome_v2.0

The other G. barbadense genome assembly is available in GenBank under PRJNA251673.

Funding

This research was supported by The National Key Research and Development Plan of China (grants 2016YFD0100306 and 2016YFD0100203) and The Natural Science Foundation of China (grants 31530053 and 31671745). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.


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