The molecular screening of deep water rice landraces showed that out of 21 landraces, 15 landraces possess the SNORKEL1 (SK1) and SNORKEL2 (SK2) genes conferring stem elongation of paddy plant survive in increased water level of deep water ecosystem. Both genes/Quantitative trait loci (QTLs) were subjected to study through in-silico approaches. The fasta sequences, secondary structure and 3D structure of those proteins were identified and verified using bioinformatics tools. The physico-chemical properties and functions were also predicted. The in-silico study of SNORKEL1 (SK1) and SNORKEL2 (SK2) QTL have also revealed the capacity and way of survival of deep water rice germplasm noticeably. This study illustrates the many deep water rice varieties having SNORKEL1 (SK1) and SNORKEL2 (SK2) QTL and others do not possess the these QTLs though they are cultivated in deep water ecosystem. The molecular screening and in-silico study output of deep water rice landraces can be applied for establishing morphological correlation that 15 landraces are more elongating type than others and more adapted in natural deep water condition.
Published in | American Journal of Plant Biology (Volume 3, Issue 4) |
DOI | 10.11648/j.ajpb.20180304.11 |
Page(s) | 33-40 |
Creative Commons |
This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited. |
Copyright |
Copyright © The Author(s), 2019. Published by Science Publishing Group |
Deep Water Rice, Molecular Screening, SNORKEL1, SNORKEL2, In-silico Study
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APA Style
Al Amin, KM Iftekharuddaula, Animesh Sarker, Md. Abdul Kader, Ashraf Hossain Talukder, et al. (2019). Exploration of SNORKEL1 (SK1) and SNORKEL2 (SK2) QTLs in Deep Water Rice Germplasm Through Genotyping and In-silico Approach. American Journal of Plant Biology, 3(4), 33-40. https://doi.org/10.11648/j.ajpb.20180304.11
ACS Style
Al Amin; KM Iftekharuddaula; Animesh Sarker; Md. Abdul Kader; Ashraf Hossain Talukder, et al. Exploration of SNORKEL1 (SK1) and SNORKEL2 (SK2) QTLs in Deep Water Rice Germplasm Through Genotyping and In-silico Approach. Am. J. Plant Biol. 2019, 3(4), 33-40. doi: 10.11648/j.ajpb.20180304.11
AMA Style
Al Amin, KM Iftekharuddaula, Animesh Sarker, Md. Abdul Kader, Ashraf Hossain Talukder, et al. Exploration of SNORKEL1 (SK1) and SNORKEL2 (SK2) QTLs in Deep Water Rice Germplasm Through Genotyping and In-silico Approach. Am J Plant Biol. 2019;3(4):33-40. doi: 10.11648/j.ajpb.20180304.11
@article{10.11648/j.ajpb.20180304.11, author = {Al Amin and KM Iftekharuddaula and Animesh Sarker and Md. Abdul Kader and Ashraf Hossain Talukder and Tamal Lata Aditya and Md. Ansar Ali and Md. Shahjahan Kabir}, title = {Exploration of SNORKEL1 (SK1) and SNORKEL2 (SK2) QTLs in Deep Water Rice Germplasm Through Genotyping and In-silico Approach}, journal = {American Journal of Plant Biology}, volume = {3}, number = {4}, pages = {33-40}, doi = {10.11648/j.ajpb.20180304.11}, url = {https://doi.org/10.11648/j.ajpb.20180304.11}, eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ajpb.20180304.11}, abstract = {The molecular screening of deep water rice landraces showed that out of 21 landraces, 15 landraces possess the SNORKEL1 (SK1) and SNORKEL2 (SK2) genes conferring stem elongation of paddy plant survive in increased water level of deep water ecosystem. Both genes/Quantitative trait loci (QTLs) were subjected to study through in-silico approaches. The fasta sequences, secondary structure and 3D structure of those proteins were identified and verified using bioinformatics tools. The physico-chemical properties and functions were also predicted. The in-silico study of SNORKEL1 (SK1) and SNORKEL2 (SK2) QTL have also revealed the capacity and way of survival of deep water rice germplasm noticeably. This study illustrates the many deep water rice varieties having SNORKEL1 (SK1) and SNORKEL2 (SK2) QTL and others do not possess the these QTLs though they are cultivated in deep water ecosystem. The molecular screening and in-silico study output of deep water rice landraces can be applied for establishing morphological correlation that 15 landraces are more elongating type than others and more adapted in natural deep water condition.}, year = {2019} }
TY - JOUR T1 - Exploration of SNORKEL1 (SK1) and SNORKEL2 (SK2) QTLs in Deep Water Rice Germplasm Through Genotyping and In-silico Approach AU - Al Amin AU - KM Iftekharuddaula AU - Animesh Sarker AU - Md. Abdul Kader AU - Ashraf Hossain Talukder AU - Tamal Lata Aditya AU - Md. Ansar Ali AU - Md. Shahjahan Kabir Y1 - 2019/05/06 PY - 2019 N1 - https://doi.org/10.11648/j.ajpb.20180304.11 DO - 10.11648/j.ajpb.20180304.11 T2 - American Journal of Plant Biology JF - American Journal of Plant Biology JO - American Journal of Plant Biology SP - 33 EP - 40 PB - Science Publishing Group SN - 2578-8337 UR - https://doi.org/10.11648/j.ajpb.20180304.11 AB - The molecular screening of deep water rice landraces showed that out of 21 landraces, 15 landraces possess the SNORKEL1 (SK1) and SNORKEL2 (SK2) genes conferring stem elongation of paddy plant survive in increased water level of deep water ecosystem. Both genes/Quantitative trait loci (QTLs) were subjected to study through in-silico approaches. The fasta sequences, secondary structure and 3D structure of those proteins were identified and verified using bioinformatics tools. The physico-chemical properties and functions were also predicted. The in-silico study of SNORKEL1 (SK1) and SNORKEL2 (SK2) QTL have also revealed the capacity and way of survival of deep water rice germplasm noticeably. This study illustrates the many deep water rice varieties having SNORKEL1 (SK1) and SNORKEL2 (SK2) QTL and others do not possess the these QTLs though they are cultivated in deep water ecosystem. The molecular screening and in-silico study output of deep water rice landraces can be applied for establishing morphological correlation that 15 landraces are more elongating type than others and more adapted in natural deep water condition. VL - 3 IS - 4 ER -