Open Access Research article

Functional genomics of fuzzless-lintless mutant of Gossypium hirsutum L. cv. MCU5 reveal key genes and pathways involved in cotton fibre initiation and elongation

Kethireddy Venkata Padmalatha1, Deepak P Patil2, Krishan Kumar2, Gurusamy Dhandapani1, Mogilicherla Kanakachari1, Mullapudi LV Phanindra1, Saravanan Kumar2, T C Mohan3, Neha Jain1, Arkalgud H Prakash4, Hiremath Vamadevaiah3, Ishwarappa S Katageri3, Sadhu Leelavathi2, Malireddy K Reddy2, Polumetla Ananda Kumar1 and Vanga Siva Reddy2*

Author Affiliations

1 National Research Centre on Plant Biotechnology, Pusa Campus, New Delhi, 110 012, India

2 Plant Transformation Group, International Center for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi, 110067, India

3 Agricultural Research Station, Dharwad Farm, University of Agricultural Sciences, Dharwad, India

4 Central Institute for Cotton Research, Regional Station, Coimbatore, Tamil Nadu, India

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BMC Genomics 2012, 13:624  doi:10.1186/1471-2164-13-624

Published: 14 November 2012

Additional files

Additional file 1:

List of differentially expressed transcripts (DETs) at 0, 5, 10, 15 and 20 dpa in the fl mutant as compared to their respective stages in WT. Excel file containing the DETs with p value ≤ 0.01 and fold change ≥ 3.

Format: XLS Size: 1.4MB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 2:

Functional classification of DETs at 0, 5, 10, 15 and 20 dpa in the fl mutant as compared to their respective stages in WT. PPT file containing the DETs grouped into various functional categories based on MIPS data base.

Format: PPT Size: 125KB Download file

This file can be viewed with: Microsoft PowerPoint Viewer

Open Data

Additional file 3:

List of DETs encoding putative transcription factors (TFs) belonging to various families at 0, 5, 10 and 20 dpa in the fl mutant as compared to their respective stages in WT. Excel file containing the differentially expressed putative transcription factors based on Arabidopsis transcription factor database (E-value cutoff ≤ e-10).

Format: XLS Size: 4.3MB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 4:

List of DETs involved in phytohormone biosynthesis and signalling pathways at 0, 5, 10, 15 and 20 dpa in the fl mutant as compared to their respective stages in WT. Excel file containing the DETs involved in phytohormone biosynthesis and signalling pathways were identified based on Arabidopsis hormone database (E value cutoff ≤ e-10). (XLS 669 kb)

Format: XLS Size: 670KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 5::

Differentially expressed transcripts (DETs) involved in carbohydrate metabolism at 0, 5, 10, 15 and 20 dpa in the fl mutant as compared to their respective stages in WT. PPT file containing the DETs involved in biosynthesis of RFO, trehalose and cell wall precursors.

Format: PPT Size: 148KB Download file

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Open Data

Additional file 6:

List of DETs related to fatty acid metabolism, carbohydrate and energy metabolism, cell wall loosening and elongation 0, 5, 10, 15 and 20 dpa in the fl mutant as compared to their respective stages in WT. Excel file containing the differentially expressed transcripts related to different functional categories based on MIPS and MapMan databases.

Format: XLS Size: 167KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 7:

List of primers used for qRT-PCR analysis. Excel file containing the primer sequences used for qRT-PCR to validate microarray data.

Format: XLS Size: 33KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data