Article
Plant Sciences
Kyung-Jun Lee, Raveendar Sebastin, Gyu-Taek Cho, Munsup Yoon, Gi-An Lee, Do-Yoon Hyun
Summary: This study investigated the genetic diversity and population structure of potato germplasm conserved in South Korea, finding that the 482 potato accessions could be divided into two main subpopulations - one consisting mainly of cultivars and breeding lines, while the other primarily including wild relatives of potatoes.
Article
Plant Sciences
Alisa Kongjaimun, Yu Takahashi, Yosuke Yoshioka, Norihiko Tomooka, Rachsawan Mongkol, Prakit Somta
Summary: This study investigated the genetic diversity and structure of cultivated and wild lablab (Lablab purpureus) accessions using SSR markers. The gene diversity was relatively low overall, with greater diversity in the wild accessions compared to cultivated accessions. The results indicated that South Africa is the center of origin and East Africa is the center of domestication of lablab. The cluster analyses and haplotype network analysis revealed different domestication routes for the different varieties of lablab.
Article
Multidisciplinary Sciences
Yacine Diaw, Christine Tollon-Cordet, Alain Charcosset, Stephane D. Nicolas, Delphine Madur, Joelle Ronfort, Jacques David, Brigitte Gouesnard
Summary: The study shows that maize landraces in the South-West of France have diverse origins, with a predominance of Northern Flint germplasm. Two weakly differentiated genetic groups were identified in the region, with a longitudinal gradient along the area. The existence of a contact zone between the groups near the Garonne valley suggests evolutionary forces at play.
Article
Plant Sciences
Giulio Catarcione, Anna Rita Paolacci, Enrica Alicandri, Elena Gramiccia, Paola Taviani, Roberto Rea, Maria Teresa Costanza, Gabriella De Lorenzis, Guglielmo Puccio, Francesco Mercati, Mario Ciaffi
Summary: A study was conducted to characterize 114 accessions of 66 landraces of common beans in the Lazio region. The genetic analysis showed that the P. vulgaris germplasm in the region has a high level of genetic diversity, with the Andean gene pool prevailing and 12% of landraces representing putative hybrids. The combination of morphological, biochemical, and molecular data allowed for the differentiation of all landraces and the resolution of certain cases of homonymy and synonymy.
Article
Plant Sciences
Gizachew Woldesenbet Nuraga, Tileye Feyissa, Kassahun Tesfaye, Manosh Kumar Biswas, Trude Schwarzacher, James S. Borrell, Paul Wilkin, Sebsebe Demissew, Zerihun Tadele, J. S. (Pat) Heslop-Harrison
Summary: Enset, a multipurpose crop in Ethiopia, contributes significantly to food security and rural livelihoods. Different landraces face threats from human activities and environmental constraints, but genetic diversity and conservation strategies need further verification.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Multidisciplinary Sciences
Kefyalew Negisho, Surafel Shibru, Klaus Pillen, Frank Ordon, Gwendolin Wehner
Summary: The study conducted genetic diversity and population structure analysis on 285 durum wheat accessions, finding high genetic diversity within Ethiopian durum wheat landraces, and indicating high genetic differentiation and limited gene flow based on FST and Nm analysis.
Article
Agronomy
Debjani Roy Choudhury, Ramesh Kumar, Avantika Maurya, Dinesh P. Semwal, Ranbir S. Rathi, Raj K. Gautam, Ajaya K. Trivedi, Santosh K. Bishnoi, Sudhir P. Ahlawat, Kuldeep Singh, Nagendra K. Singh, Rakesh Singh
Summary: This study investigated the genetic diversity and geographical isolation of 298 rice landraces from six different regions of India using SSR and SNP marker systems. The results showed that rice landraces from Uttar Pradesh were the most diverse, and complete geographical isolation was observed with SSR markers. Population structure analysis revealed different clustering patterns among regions with SSR and SNP markers. The study concluded that unlinked SSR markers showed better geographical isolation than a large set of SNP markers.
Article
Agronomy
Vinay Bhardwaj, Ashwani Kumar, Sanjeev Sharma, Baljeet Singh, Salej Sood, Bhawna Dipta, Rajender Singh, Sundaresha Siddappa, Ajay Kumar Thakur, Dalamu Dalamu, Ashwani Kumar Sharma, Vinod Kumar, Mehi Lal, Devendra Kumar
Summary: The genetic diversity of 353 potato accessions was analyzed using 25 SSR markers. The study revealed high levels of polymorphism and distinctness among the accessions. A total of 343 alleles were observed, with varying numbers of alleles per SSR marker. Cluster analysis divided the population into five major groups. The findings suggest that SSR markers are appropriate for evaluating genetic diversity and population structure in potato germplasm collections, and the markers identified could be useful in marker-assisted breeding for late blight resistance.
Article
Agronomy
Haizheng Xiong, Yilin Chen, San-Ji Gao, Yong-Bao Pan, Ainong Shi
Summary: This study assessed the genetic diversity and population structure of 196 Saccharum accessions, including various species and hybrids, using multiple analysis methods. The results showed that different species of sugarcane merged together, and specific alleles were important for sugarcane breeding and species identification. These findings provide valuable information for future genetic research and utilization of sugarcane germplasm resources.
Article
Agronomy
Pervin Mst Naznin, Odirichi Nnennaya Imoh, Katsunori Tanaka, Ouch Sreynech, Gentaro Shigita, Yon Sophea, Sakhan Sophany, Ouk Makara, Norihiko Tomooka, Yuki Monden, Hidetaka Nishida, Kenji Kato
Summary: The genetic diversity of Cambodian melons was assessed using RAPD and SSR markers, and compared with melons from other regions. The results showed that Cambodian melons had similar gene diversity to Conomon and Makuwa, and were genetically similar to melons from Thailand, Myanmar, Yunnan (China), and Vietnam. Additionally, there were two distinct groups of melons in Southeast Asia, indicating that Cambodian melons are not directly related to Conomon and Makuwa.
GENETIC RESOURCES AND CROP EVOLUTION
(2023)
Article
Plant Sciences
Neha Rajan, Sandip Debnath, Kahkashan Perveen, Faheema Khan, Brijesh Pandey, Akanksha Srivastava, Mehrun Nisha Khanam, Vetriselvan Subramaniyan, Vinoth Kumarasamy, Pronob J. Paul, Mohan Lal
Summary: This study investigated the genetic diversity and heterosis of 14 eggplant genotypes. Genetic distance was found to impact heterotic patterns, particularly in fruit yield per plant. The results emphasize the importance of parental selection in hybrid breeding programs and provide insights for enhancing crop yield in breeding programs.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Agronomy
Wanchana Aesomnuk, Siriphat Ruengphayak, Vinitchan Ruanjaichon, Tanee Sreewongchai, Chanate Malumpong, Apichart Vanavichit, Theerayut Toojinda, Samart Wanchana, Siwaret Arikit
Summary: The study reveals rich genetic diversity in rice germplasm resources in different geographical regions of Thailand, with high genetic differentiation within populations. The greatest genetic differentiation was found between the northeastern and southern populations, while the smallest genetic differentiation was observed between the northern and northeastern populations. There is a significant relationship between genetic distance and geographic distance among Thai rice landraces.
Article
Forestry
Bin Huang, Zhongwei Wang, Jianjian Huang, Xiaohui Li, Heng Zhu, Qiang Wen, Li-an Xu
Summary: This study investigated the genetic diversity of Camellia chekiangoleosa and found that the genetic diversity was low overall, with high diversity in central populations and high genetic differentiation among populations. The low genetic diversity can be attributed to small population sizes, bottleneck effects, inbreeding within populations, and low gene flow among populations.
Article
Multidisciplinary Sciences
Hansheng Zhao, Shuai Sun, Yulong Ding, Yue Wang, Xianghua Yue, Xiao Du, Qiang Wei, Guangyi Fan, Huayu Sun, Yongfeng Lou, Huanming Yang, Jian Wang, Xun Xu, Lichao Li, Kebin Yang, Hao Xu, Jiongliang Wang, Chenglei Zhu, Sining Wang, Xuemeng Shan, Yinguang Hou, Yu Wang, Benhua Fei, Xin Liu, Zehui Jiang, Zhimin Gao
Summary: The study analyzed 427 genomes of moso bamboo from 15 representative geographic areas, identifying genes related to population adaptation, historic demography patterns, and candidate genes for important traits.
NATURE COMMUNICATIONS
(2021)
Article
Plant Sciences
Rong Huang, Yinrong Liu, Jianling Chen, Zuyu Lu, Jiajia Wang, Wei He, Zhi Chao, Enwei Tian
Summary: This study evaluated the levels of genetic variation and differentiation within and between wild and cultivated populations of Angelica dahurica using microsatellite markers. The results suggest that the domestication process is likely the major factor resulting in the loss of genetic diversity in cultivated populations and in significant genetic differentiation from the wild populations.
Article
Biotechnology & Applied Microbiology
Sohaib Ahmed, Muhammad Abdul Rehman Rashid, Syed Adeel Zafar, Muhammad Tehseen Azhar, Muhammad Waqas, Muhammad Uzair, Iqrar Ahmad Rana, Farrukh Azeem, Gyuhwa Chung, Zulfiqar Ali, Rana Muhammad Atif
Summary: The study identified and characterized twenty-six genes encoding AP2 transcription factor subfamily in indica rice, distributed among eleven chromosomes. Phylogenetic analysis grouped OsAP2 TF family-members into three clades, indicating conservation among cereals. Segmental duplications were observed as the primary route of evolution, estimated to have originated around 10.57 to 56.72 million years ago.
Article
Biodiversity Conservation
Li-Na Yang, Oswald Nkurikiyimfura, Zhe-Chao Pan, Yan-Ping Wang, Abdul Waheed, Ruey-Shyang Chen, Jeremy J. Burdon, Qi-Jun Sui, Jiasui Zhan
Summary: This study shows that genetic diversity of potato populations influences the evolution of fungicide resistance in Phytophthora infestans, resulting in increased sensitivity to fungicides and reduced genetic variation available for developing resistance. These effects are independent of fungicide biochemical properties and are likely due to host selection for pathogen strains with different fungicide responses. Agricultural practices promoting crop diversification can reduce fungicide usage and mitigate the risk of fungicide resistance development in pathogens, contributing to food security and ecological sustainability.
JOURNAL OF APPLIED ECOLOGY
(2021)
Article
Genetics & Heredity
Hannele Lindqvist-Kreuze, Bert De Boeck, Paula Unger, Dorcus Gemenet, Xianping Li, Zhechao Pan, Qinjun Sui, Junhong Qin, Gebremedhin Woldegjorgis, Kassaye Negash, Ibrahim Seid, Betaw Hirut, Manuel Gastelo, Jose De Vega, Merideth Bonierbale
Summary: This study identified resistance genes at specific loci in diverse tetraploid potato germplasm with multiple resistances and quality traits, and found certain genotypes showing high levels of resistance in multiple environments. The use of genomic best linear unbiased predictors (GBLUPs) with diploid marker data and QTL-linked markers as fixed effects yielded the best prediction ability (0.868).
G3-GENES GENOMES GENETICS
(2021)
Article
Plant Sciences
Farrukh Azeem, Roshan Zameer, Muhammad Abdul Rehman Rashid, Ijaz Rasul, Sami Ul-Allah, Muhammad Hussnain Siddique, Sajid Fiaz, Ali Raza, Afifa Younas, Asima Rasool, Muhammad Amjad Ali, Sultana Anwar, Manzer H. Siddiqui
Summary: This study identified and classified 43 Potassium Transport System (PTS) genes in the Gossypium raimondii genome. Comparative analysis with other plant species revealed variations in the conservation of these genes. Promoter region analysis predicted stress-responsive elements. The results provide valuable information for further functional characterization of these genes for stress-resistant cultivars.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2022)
Article
Multidisciplinary Sciences
Hafiz Ghulam Muhu-Din Ahmed, Muhammad Naeem, Yawen Zeng, Muhammad Abdul Rehman Rashid, Aziz Ullah, Amjad Saeed, Abdul Qadeer
Summary: Understanding the genetic basis of heat tolerance in wheat is crucial for increasing wheat production. A genome-wide association study identified several significant marker-trait associations related to heat tolerance. The findings provide important insights for the development of heat-tolerant and high-yielding wheat genotypes.
Article
Plant Sciences
Yinghua Pan, Lei Chen, Yan Zhao, Haifeng Guo, Jingcheng Li, Muhammad Abdul Rehman Rashid, Chunju Lu, Weiyong Zhou, Xingka Yang, Yuntao Liang, Hao Wu, Dongjing Qing, Lijun Gao, Gaoxing Dai, Danting Li, Guofu Deng
Summary: The OsMKK3 allele plays a significant role in controlling grain size and chalkiness in rice, and has a substantial impact on the grain size pathway. Improving rice quality and yield can be achieved by polymerizing beneficial alleles, including OsMKK3, with other beneficial alleles.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Plant Sciences
Muhammad Hussnain Siddique, Naeem Iqbal Babar, Roshan Zameer, Saima Muzammil, Nazia Nahid, Usman Ijaz, Ashir Masroor, Majid Nadeem, Muhammad Abdul Rehman Rashid, Abeer Hashem, Farrukh Azeem, Elsayed Fathi Abd Allah
Summary: This study identified 39 K+ transport genes in Cajanus cajan, involving various types of transporters and channels. These genes showed significant conservation in gene structure and expression, and were closely related to K+ transport genes in other plants.
Article
Multidisciplinary Sciences
Hafiz Ghulam Muhu-Din Ahmed, Yawen Zeng, Muhammad Iqbal, Muhammad Abdul Rehman Rashid, Humayun Raza, Aziz Ullah, Muhammad Ali, Muhammad Majid Yar, Adnan Noor Shah
Summary: In this study, a genome-wide association study (GWAS) was conducted to identify significant SNPs associated with drought tolerance and yield in wheat. The results validated previous findings and revealed novel associations under drought-stressed conditions. Furthermore, 171 candidate genes were identified, providing potential targets for further functional characterization.
Article
Multidisciplinary Sciences
Muhammad Abdul Rehman Rashid, Rana Muhammad Atif, Yan Zhao, Farrukh Azeem, Hafiz Ghulam Muhu-Din Ahmed, Yinghua Pan, Danting Li, Yong Zhao, Zhanying Zhang, Hongliang Zhang, Jinjie Li, Zichao Li
Summary: This study investigated the genetic mechanism for rice plant architecture through evaluation of a natural population and genome-wide association analysis. Multiple significant genetic loci related to tiller angle were identified, and functional variations of some loci were determined through haplotype analysis. These findings provide important insights for future rice breeding programs and improving light capture efficiency.
Review
Agronomy
Muhammad Mahran Aslam, Muhammad Abdul Rehman Rashid, Mohammad Aquil Siddiqui, Muhammad Tahir Khan, Fozia Farhat, Shafquat Yasmeen, Imtiaz Ahmad Khan, Shameem Raja, Fatima Rasool, Mahboob Ali Sial, Yan Zhao
Summary: Drought is a pressing issue in the era of climate change, greatly affecting rice growth and productivity. Drought avoidance strategies in rice include stomatal closure, cellular adaptation, and changes in root development. Plant hormones and reactive oxygen species play a significant role in drought tolerance in rice. This article discusses conventional breeding methods and genetic engineering techniques to improve rice drought tolerance.
Article
Genetics & Heredity
Ying-Hua Pan, Lei Chen, Hai-Feng Guo, Rui Feng, Qi-Jin Lou, Muhammad Abdul Rehman Rashid, Xiao-Yang Zhu, Dong-Jin Qing, Hai-Fu Liang, Li-Jun Gao, Cheng-Cui Huang, Yan Zhao, Guo-Fu Deng
Summary: A genome-wide analysis of 258 NB-ARC genes in rice revealed their expression in roots, panicles, and leaves, with regulation during the panicle development stage. The GNP12 gene, encoding RGH1A protein, was found to positively regulate rice yield based on panicle length, grain number of panicle, and grain length.
FRONTIERS IN GENETICS
(2022)
Article
Genetics & Heredity
Muhammad Abdul Rehman Rashid, Yong Zhao, Farrukh Azeem, Yan Zhao, Hafiz Ghulam Muhu-Din Ahmed, Rana Muhammad Atif, Yinghua Pan, Xiaoyang Zhu, Yuntao Liang, Hongliang Zhang, Danting Li, Zhanying Zhang, Zichao Li
Summary: Lodging is a major abiotic stress that affects crop yield and quality. This study identified multiple pleiotropic loci and candidate genes associated with lodging resistance in rice through genome-wide association analysis.
FRONTIERS IN GENETICS
(2022)
Article
Multidisciplinary Sciences
Ammara Nasim, Muhammad Abdul Rehman Rashid, Khadim Hussain, Ibrahim Mohammed Al-Shahwan, Mohammed Ali Al-Saleh
Summary: This study revealed the contribution of beta C1 in disease pathogenicity and identified potential interacting partners of beta C1 protein in Nicotiana benthamiana. The interaction between beta C1 and NTF2 was studied using yeast two-hybrid and in-silico analyses, providing insights into the molecular mechanism of disease pathogenicity and potential strategies for disease resistance breeding.
Article
Multidisciplinary Sciences
Asima Rasheed, Javed Ahmad, Majid Nadeem, Muhammad Abdul Rehman Rashid, Farrukh Azeem
Summary: This study investigated the impact of soil application of zinc and cadmium on the accumulation of iron and zinc in wheat grains. SSR markers based on 45 transporter-related genes were used to identify associations between markers and accumulation traits. The results showed that application of 20 mg/kg of zinc improved iron and zinc accumulation in wheat grains, and several markers were found to be significantly associated with accumulation traits.
Article
Genetics & Heredity
Conghui Jiang, Muhammad Abdul Rehman Rashid, Yanhong Zhang, Yan Zhao, Yinghua Pan
Summary: In this study, a genome-wide association study was conducted to identify candidate genes associated with glutinous rice. The results revealed different numbers of candidate genes in different sub-populations and highlighted the distribution differences of these genes in different regions. Population structure and genetic differentiation analysis suggested that these starch genes originated from wild rice and were then introduced into glutinous rice. This research has important implications for improving the quality of glutinous rice and understanding its history.
