Kushwaha, Sandeep Kumar
- Institutionen för växtskyddsbiologi, Sveriges lantbruksuniversitet
- Lunds Universitet
Sammanfattning
The nucleotide binding site leucine-rich repeats (NBSLRRs) belong to one of the largest known families of disease resistance genes that encode resistance proteins (R-protein) against the pathogens of plants. Various defence mechanisms have explained the regulation of plant immunity, but still, we have limited understanding about plant defence against different pathogens. Identification of R-proteins and proteins having R-protein-like features across the genome, transcriptome and proteome would be highly useful to develop the global understanding of plant defence mechanisms, but it is laborious and time-consuming task. Therefore, we have developed a support vector machine-based high-throughput pipeline called NBSPred to differentiate NBSLRR and NBSLRR-like protein from Non-NBSLRR proteins from genome, transcriptome and protein sequences. The pipeline was tested and validated with input sequences from three dicot and two monocot plants including Arabidopsis thaliana, Boechera stricta, Brachypodium distachyon Solanum lycopersicum and Zea mays.
Publicerad i
Bioinformatics
2016, volym: 32, nummer: 8, sidor: 1223-1225
Utgivare: OXFORD UNIV PRESS
SLU författare
Associerade SLU-program
SLU Nätverk växtskydd
UKÄ forskningsämne
Bioinformatik (beräkningsbiologi)
Publikationens identifierare
- DOI: https://doi.org/10.1093/bioinformatics/btv714
Permanent länk till denna sida (URI)
https://res.slu.se/id/publ/83252