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Marker assisted selection

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https://www.readbyqxmd.com/read/28330167/genetic-characterization-of-moroccan-and-the-exotic-bread-wheat-cultivars-using-functional-and-random-dna-markers-linked-to-the-agronomic-traits-for-genomics-assisted-improvement
#1
Fatima Henkrar, Jamal El-Haddoury, Hassan Ouabbou, Najib Bendaou, Sripada M Udupa
Genetic characterization, diversity analysis and estimate of the genetic relationship among varieties using functional and random DNA markers linked to agronomic traits can provide relevant guidelines in selecting parents and designing new breeding strategies for marker-assisted wheat cultivar improvement. Here, we characterize 20 Moroccan and 19 exotic bread wheat (Triticum aestivum L.) cultivars using 47 functional and 7 linked random DNA markers associated with 21 loci of the most important traits for wheat breeding...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330146/mapping-of-stripe-rust-resistance-qtl-in-cappelle-desprez%C3%A2-%C3%A3-%C3%A2-pbw343-ril-population-effective-in-northern-wheat-belt-of-india
#2
Sushma Kumari Pawar, Davinder Sharma, Joginder Singh Duhan, Mahender Singh Saharan, Ratan Tiwari, Indu Sharma
Stripe rust caused by Puccinia striiformis f. sp. tritici is most important and devastating disease of wheat worldwide, which affects the grain yields, quality and nutrition. To elucidate, the genetic basis of resistance, a mapping population of recombinant inbred lines was developed from a cross between resistant Cappelle-Desprez and susceptible cultivar PBW343 using single-seed descent. Variety PBW343 had been one of the most popular cultivars of North Western Plains Zone, for more than a decade, before succumbing to the stripe rust...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28326434/genetic-architecture-of-male-fertility-restoration-of-triticum-timopheevii-cytoplasm-and-fine-mapping-of-the-major-restorer-locus-rf3-on-chromosome-1b
#3
Tobias Würschum, Willmar L Leiser, Sigrid Weissmann, Hans Peter Maurer
Restoration of fertility in the cytoplasmic male sterility-inducing Triticum timopheevii cytoplasm can be achieved with the major restorer locus Rf3 located on chromosome 1B, but is also dependent on modifier loci. Hybrid breeding relies on a hybrid mechanism enabling a cost-efficient hybrid seed production. In wheat and triticale, cytoplasmic male sterility based on the T. timopheevii cytoplasm is commonly used, and the aim of this study was to dissect the genetic architecture underlying fertility restoration...
March 21, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28325688/current-and-emerging-molecular-tests-for-human-papillomavirus-related-neoplasia-in-the-genomic-era
#4
REVIEW
Sixto M Leal, Margaret L Gulley
Laboratory tests have a key role in preventing human papillomavirus (HPV)-driven carcinomas and in guiding therapeutic interventions. An understanding of the virology, immunology, and carcinogenesis of HPV is essential for choosing appropriate diagnostic test modalities and developing new and even more effective cancer prevention strategies. HPV infects basal epithelial cells on multiple surfaces and induces carcinoma primarily in the cervix and the oropharynx. HPV types are stratified as high risk or low risk based on their carcinogenic potential, driven largely by viral interference with cell cycle regulation and the DNA damage response to promote continuous cell division while thwarting apoptosis, which enables mutation accumulation...
March 18, 2017: Journal of Molecular Diagnostics: JMD
https://www.readbyqxmd.com/read/28321828/genome-wide-association-analysis-tracks-bacterial-leaf-blight-resistance-loci-in-rice-diverse-germplasm
#5
Christine Jade Dilla-Ermita, Erwin Tandayu, Venice Margarette Juanillas, Jeffrey Detras, Dennis Nicuh Lozada, Maria Stefanie Dwiyanti, Casiana Vera Cruz, Edwige Gaby Nkouaya Mbanjo, Edna Ardales, Maria Genaleen Diaz, Merlyn Mendioro, Michael J Thomson, Tobias Kretzschmar
BACKGROUND: A range of resistance loci against different races of Xanthomonas oryzae pv. oryzae (Xoo), the pathogen causing bacterial blight (BB) disease of rice, have been discovered and characterized. Several have been deployed in modern varieties, however, due to rapid evolution of Xoo, a number have already become ineffective. The continuous "arms race" between Xoo and rice makes it imperative to discover new resistance loci to enable durable deployment of multiple resistance genes in modern breeding lines...
December 2017: Rice
https://www.readbyqxmd.com/read/28315926/dissection-of-a-major-qtl-qhir1-conferring-maternal-haploid-induction-ability-in-maize
#6
Sudha K Nair, Willem Molenaar, Albrecht E Melchinger, Prasanna M Boddupalli, Leocadio Martinez, Luis Antonio Lopez, Vijay Chaikam
Among the qhir11 and qhir12 sub-regions of a major QTL qhir1, only qhir11 has significant effect on maternal haploid induction, segregation distortion and kernel abortion. In vivo haploid induction in maize can be triggered in high frequencies by pollination with special genetic stocks called haploid inducers. Several genetic studies with segregating populations from non-inducer x inducer crosses identified a major QTL, qhir1, on chromosome 1.04 contributing to in vivo haploid induction. A recent Genome Wide Association Study using 51 inducers and 1482 non-inducers also identified two sub-regions within the qhir1 QTL region, named qhir11 and qhir12; qhir12 was proposed to be mandatory for haploid induction because the haplotype of qhir11 was also present in some non-inducers and putative candidate genes coding for DNA and amino acid binding proteins were identified in the qhir12 region...
March 18, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28303149/qtl-hotspots-for-early-vigor-and-related-traits-under-dry-direct-seeded-system-in-rice-oryza-sativa-l
#7
Uma M Singh, Shailesh Yadav, Shilpi Dixit, P Janaki Ramayya, M Nagamallika Devi, K Anitha Raman, Arvind Kumar
Strong seedling vigor is desirable trait in dry direct-seeded rice (DSR) for enhancing crop establishment and the ability to compete against weeds. A set of 253 BC3F4 lines derived from cross between Swarna and Moroberekan was phenotyped for early vigor (EV) and 8 related traits viz., early uniform emergence (EUE), shoot length (SHL), stem length (SL), shoot fresh weight (SFW), total fresh weight (TFW), shoot dry weight (SDW), total dry weight (TDW), and root dry weight (RDW). Composite interval mapping analysis using genotypic data from 194 SNP markers identified six genomic regions associated with traits on chromosomes 3, 4, 5, and 6 with phenotypic variance ranging from 2...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28299373/examining-two-sets-of-introgression-lines-reveals-background-independent-and-stably-expressed-qtl-that-improve-grain-appearance-quality-in-rice-oryza-sativa-l
#8
Xianjin Qiu, Kai Chen, Wenkai Lv, Xiaoxue Ou, Yajun Zhu, Danying Xing, Longwei Yang, Fangjun Fan, Jie Yang, Jianlong Xu, Tianqing Zheng, Zhikang Li
A novel QTL cluster for appearance quality on Chr07 was identified using reciprocal introgression populations in different locations in China. Two secondary F 2 populations validated QTL with significant effect on appearance quality. Appearance quality (AQ) is the main determinants of market value of rice. Identification of QTL affecting AQ is the prerequisite for efficient improvement of AQ through marker-assisted selection (MAS). Two sets of reciprocal introgression lines derived from indica Minghui 63 and japonica 02428 were used to dissect the stability of QTL affecting five AQ traits, including grain length, grain width, length to width ratio, percentage of grains with chalkiness, and degree of endosperm chalkiness using 4568 bin genotype produced from 58,000 SNPs across five different environments...
March 15, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28288039/lmo2-negative-expression-predicts-the-presence-of-myc-translocations-in-aggressive-b-cell-lymphomas
#9
Luis Colomo, Ivonne Vazquez, Natalia Papaleo, Blanca Espinet, Anna Ferrer, Catalina Franco, Laura Comerma, Silvia Hernandez, Xavier Calvo, Antonio Salar, Fina Climent, José Luis Mate, Pilar Forcada, Anna Mozos, Lara Nonell, Antonio Martinez, Anna Carrio, Dolors Costa, Ivan Dlouhy, Itziar Salaverria, Jose Ignacio Martin-Subero, Armando Lopez-Guillermo, Alexandra Valera, Elias Campo
MYC translocation is a defining feature of Burkitt lymphoma (BL), and the new category of high-grade B-cell lymphomas with MYC and BCL2 and/or BCL6 translocations, and occurs in 6% to 15% of diffuse large B-cell lymphomas (DLBCLs). The low incidence of MYC translocations in DLBCL makes the genetic study of all these lymphomas cumbersome. Strategies based on an initial immunophenotypic screening to select cases with a high probability of carrying the translocation may be useful. LMO2 is a germinal center marker expressed in most lymphomas originated in these cells...
March 10, 2017: American Journal of Surgical Pathology
https://www.readbyqxmd.com/read/28286900/physical-mapping-of-dna-markers-linked-to-stem-rust-resistance-gene-sr47-in-durum-wheat
#10
Daryl L Klindworth, Jyoti Saini, Yunming Long, Matthew N Rouse, Justin D Faris, Yue Jin, Steven S Xu
Markers linked to stem rust resistance gene Sr47 were physically mapped in three small Aegilops speltoides chromosomal bins. Five markers, including two PCR-based SNP markers, were validated for marker-assisted selection. In durum wheat (Triticum turgidum subsp. durum), the gene Sr47 derived from Aegilops speltoides conditions resistance to race TTKSK (Ug99) of the stem rust pathogen (Puccinia graminis f. sp. tritici). Sr47 is carried on small interstitial translocation chromosomes (Ti2BL-2SL-2BL·2BS) in which the Ae...
March 12, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28270831/genomic-prediction-of-genotypic-effects-with-epistasis-and-environment-interactions-for-yield-related-traits-of-rapeseed-brassica-napus-l
#11
Xiang Luo, Yi Ding, Linzhong Zhang, Yao Yue, John H Snyder, Chaozhi Ma, Jun Zhu
Oilseed rape (Brassica napus) is an economically important oil crop, yet the genetic architecture of its complex traits remain largely unknown. Here, genome-wide association study was conducted for eight yield-related traits to dissect the genetic architecture of additive, dominance, epistasis, and their environment interaction. Additionally, the optimal genotype combination and the breeding value of superior line, superior hybrid and existing best line in mapping population were predicted for each trait in two environments based on the predicted genotypic effects...
2017: Frontiers in Genetics
https://www.readbyqxmd.com/read/28265748/identification-of-different-cytoplasms-based-on-newly-developed-mitotype-specific-markers-for-marker-assisted-selection-breeding-in-brassica-napus-l
#12
Shuangping Heng, Fengyi Chen, Chao Wei, Kaining Hu, Zonghui Yang, Jing Wen, Bin Yi, Chaozhi Ma, Jinxing Tu, Ping Si, Tingdong Fu, Jinxiong Shen
Different mitotype-specific markers were developed to distinguish different cytoplasms in Brassica napus L. Mitotype-specific markers have been developed to distinguish different mitotypes in plant. And use of molecular markers to identify different mitotypes in Brassica napus would enhance breeding efficiency. Here, we comparatively analyzed six sequenced mitochondrial genomes in Brassica napus and identified collinear block sequences and mitotype-specific sequences (MSSs) of these mitochondrial genomes. The collinear block sequences between mitochondrial genomes of nap, cam, and pol cytoplasmic male sterility (CMS) lines were higher than those of other lines...
March 6, 2017: Plant Cell Reports
https://www.readbyqxmd.com/read/28265566/whole-genome-characteristics-and-polymorphic-analysis-of-vietnamese-rice-landraces-as-a-comprehensive-information-resource-for-marker-assisted-selection
#13
Hien Trinh, Khoa Truong Nguyen, Lam Van Nguyen, Huy Quang Pham, Can Thu Huong, Tran Dang Xuan, La Hoang Anh, Mario Caccamo, Sarah Ayling, Nguyen Thuy Diep, Cuong Nguyen, Khuat Huu Trung, Tran Dang Khanh
Next generation sequencing technologies have provided numerous opportunities for application in the study of whole plant genomes. In this study, we present the sequencing and bioinformatic analyses of five typical rice landraces including three indica and two japonica with potential blast resistance. A total of 688.4 million 100 bp paired-end reads have yielded approximately 30-fold coverage to compare with the Nipponbare reference genome. Among them, a small number of reads were mapped to both chromosomes and organellar genomes...
2017: International Journal of Genomics
https://www.readbyqxmd.com/read/28261628/partial-and-complete-microdeletions-of-y-chromosome-in-infertile-males-from-south-of-iran
#14
Raheleh Masoudi, Liusa Mazaheri-Asadi, Shahryar Khorasani
Y chromosome microdeletions are the second genetic cause of male infertility. The incidence of Y chromosome microdeletions can vary considerably depending on several factors, including patient selection criteria, population composition, and diagnostic protocols. They are associated with spermatogenic failure and lead to azoospermia or oligozoospermia. The advance in assisted reproductive technology and intracytoplasmic sperm injection, and the possibility of genetic defect transmission to the next generation make it necessary to improve our knowledge about the various factors leading to spermatogenic impairment...
December 2016: Molecular Biology Research Communications
https://www.readbyqxmd.com/read/28261189/association-mapping-reveals-genetic-loci-associated-with-important-agronomic-traits-in-lentinula-edodes-shiitake-mushroom
#15
Chuang Li, Wenbing Gong, Lin Zhang, Zhiquan Yang, Wenyan Nong, Yinbing Bian, Hoi-Shan Kwan, Man-Kit Cheung, Yang Xiao
Association mapping is a robust approach for the detection of quantitative trait loci (QTLs). Here, by genotyping 297 genome-wide molecular markers of 89 Lentinula edodes cultivars in China, the genetic diversity, population structure and genetic loci associated with 11 agronomic traits were examined. A total of 873 alleles were detected in the tested strains with a mean of 2.939 alleles per locus, and the Shannon's information index was 0.734. Population structure analysis revealed two robustly differentiated groups among the Chinese L...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28250720/genome-wide-association-study-of-rust-traits-in-orchardgrass-using-slaf-seq-technology
#16
Bing Zeng, Haidong Yan, Xinchun Liu, Wenjing Zang, Ailing Zhang, Sifan Zhou, Linkai Huang, Jinping Liu
BACKGROUND: While orchardgrass (Dactylis glomerata L.) is a well-known perennial forage species, rust diseases cause serious reductions in the yield and quality of orchardgrass; however, genetic mechanisms of rust resistance are not well understood in orchardgrass. RESULTS: In this study, a genome-wide association study (GWAS) was performed using specific-locus amplified fragment sequencing (SLAF-seq) technology in orchardgrass. A total of 2,334,889 SLAF tags were generated to produce 2,309,777 SNPs...
2017: Hereditas
https://www.readbyqxmd.com/read/28249560/a-genome-wide-analysis-of-the-lysophosphatidate-acyltransferase-lpaat-gene-family-in-cotton-organization-expression-sequence-variation-and-association-with-seed-oil-content-and-fiber-quality
#17
Nuohan Wang, Jianjiang Ma, Wenfeng Pei, Man Wu, Haijing Li, Xingli Li, Shuxun Yu, Jinfa Zhang, Jiwen Yu
BACKGROUND: Lysophosphatidic acid acyltransferase (LPAAT) encoded by a multigene family is a rate-limiting enzyme in the Kennedy pathway in higher plants. Cotton is the most important natural fiber crop and one of the most important oilseed crops. However, little is known on genes coding for LPAATs involved in oil biosynthesis with regard to its genome organization, diversity, expression, natural genetic variation, and association with fiber development and oil content in cotton. RESULTS: In this study, a comprehensive genome-wide analysis in four Gossypium species with genome sequences, i...
March 1, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28246628/outcomes-and-recommendations-of-an-indian-expert-panel-for-improved-practice-in-controlled-ovarian-stimulation-for-assisted-reproductive-technology
#18
REVIEW
Baiju Ahemmed, Vani Sundarapandian, Rohit Gutgutia, Sathya Balasubramanyam, Richa Jagtap, Reeta Biliangady, Priti Gupta, Sachin Jadhav, Ruma Satwik, Pavitra Raj Dewda, Priti Thakor, Sandro C Esteves
Purpose. To improve success of in vitro fertilization (IVF), assisted reproductive technology (ART) experts addressed four questions. What is optimum oocytes number leading to highest live birth rate (LBR)? Are cohort size and embryo quality correlated? Does gonadotropin type affect oocyte yield? Should "freeze-all" policy be adopted in cycles with progesterone >1.5 ng/mL on day of human chorionic gonadotropin (hCG) administration? Methods. Electronic database search included ten studies on which panel gave opinions for improving current practice in controlled ovarian stimulation for ART...
2017: International Journal of Reproductive Medicine
https://www.readbyqxmd.com/read/28244149/eukaryotic-translation-initiation-factor-2b-beta-eif2b%C3%AE-a-new-class-of-plant-virus-resistance-gene
#19
Shopan Jannat, Haipeng Mou, Lili Zhang, Changtong Zhang, Weiwei Ma, John A Walsh, Zhongyuan Hu, Jinghua Yang, Mingfang Zhang
Recessive resistances to plant viruses in the Potyvirus genus have been found to be based on mutations in the plant eukaryotic translation initiation factors, eIF4E and eIF4G or their isoforms. Here we report that natural, monogenic recessive resistance to the potyvirus Turnip mosaic virus (TuMV) has been found in a number of mustard (Brassica juncea) accessions. Bulked segregant analysis and sequencing of resistant and susceptible plant lines indicated the resistance is controlled by a single recessive gene, recessive TuMV resistance 03 (retr03), an allele of the eukaryotic translation initiation factor 2B-beta (eIF2Bβ)...
February 28, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28241006/identification-and-validation-of-single-nucleotide-polymorphic-markers-linked-to-ug99-stem-rust-resistance-in-spring-wheat
#20
Long-Xi Yu, Shiaoman Chao, Ravi P Singh, Mark E Sorrells
Wheat stem rust (Puccinia graminis f. sp. tritici Eriks. and E. Henn.) is one of the most destructive diseases world-wide. Races belonging to Ug99 (or TTKSK) continue to cause crop losses in East Africa and threaten global wheat production. Developing and deploying wheat varieties with multiple race-specific genes or complex adult plant resistance is necessary to achieve durability. In the present study, we applied genome-wide association studies (GWAS) for identifying loci associated with the Ug99 stem rust resistance (SR) in a panel of wheat lines developed at the International Maize and Wheat Improvement Center (CIMMYT)...
2017: PloS One
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