Genome-wide cloning and sequence analysis of leucine-rich repeat receptor-like protein kinase genes in Arabidopsis thaliana
1 Department of Botany and Microbiology, University of Oklahoma, Norman, OK 73019, USA
2 College of Life Sciences, Lanzhou University, Lanzhou 730000, PR China
3 College of Life Sciences, Sichuan University, Chengdu 610064, PR China
4 Department of Horticultural Science, North Carolina State University, Raleigh, NC 27695, USA
BMC Genomics 2010, 11:19 doi:10.1186/1471-2164-11-19Published: 11 January 2010
Additional file 1:
Supplemental tables and related references. Additional file 1 contains Tables S1-S11 and references cited in Table S1. Supplemental Table S1. Arabidopsis LRR-RLKs with known functions. Supplemental Table S2. Summary of isolated LRR-RLKs. Supplemental Table S3. Isolated LRR-RLKs with the same structure as predicted in TAIR8. Supplemental Table S4. Isolated LRR-RLKs with different coding sequences and one continuous ORF. Supplemental Table S5. Isolated LRR-RLKs with different coding sequences and no continuous ORF.Supplemental Table S6. Uncloned LRR-RLKs.Supplemental Table S7. Detailed sequence information of isolated LRR-RLKs with one continuous ORF showing sequence differences. Supplemental Table S8. Detailed sequence information of isolated LRR-RLKs without continuous ORF. Supplemental Table S9. Isolated LRR-RLKs without EST sequence in TAIR database. Supplemental Table S10. Isolated LRR-RLKs without full-length coding sequence in TAIR database.Supplemental Table S11. Primers used to detect alternative splicing of LRR-RLKs.
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Additional file 2:
Cloning strategy and results. (a) Target LRR-RLK sequences without stop codons are RT-PCR amplified, agarose gel purified and recombined with the pDONR/ZeoR vector by BP clonase to create pENTR-LRR-RLK entry clones. Final expression constructs are created by performing LR clonase-mediated DNA recombination between the pENTR-LRR-RLK clones and the destination vectors that contain GFP or FLAG epitope tags. (a) The cloning results of the predicted LRR-RLKs in Arabidopsis.
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Additional file 3:
Sequence alignments of isolated LRR-RLKs displaying different coding sequences and containing one continuous ORF. Corresponding genomic DNA sequences, predicted mRNA sequences, previously reported cDNA sequences (if available), and isolated cDNA sequences obtained from this report for each LRR-RLK were aligned. Sequences with differences are indicated with red boxes.
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Additional file 4:
Sequence alignments of isolated LRR-RLKs showing different coding sequences but not containing one continuous ORF. Corresponding genomic DNA sequences, predicted mRNA sequences, previously reported cDNA sequences (if available), and isolated cDNA sequences obtained from this report for each LRR-RLK were aligned. Sequences with differences are indicated with red boxes.
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Additional file 5:
LRR-RLKs phylogeny based on the full-length amino acid sequences. The previously assigned LRR subfamily names are shown on the right in black.
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