Molecular Markers
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2021 ◽  
Vol 20 (1) ◽  
pp. 1-27
Author(s):  
Bosco Chemayek ◽  
Urmil K. Bansal ◽  
Hanif Miah ◽  
William W. Wagoire ◽  
Harbans S. Bariana

The objective of this study was to assess diversity for stem rust and stripe rust resistance in an international wheat screening nursery under greenhouse conditions using pathotypes with known avirulence/ virulence profiles. A set of 95 entries of an international wheat screening nursery collected from material generated by staff of the International Maize and Wheat Improvement Centre (CIMMYT) was tested against seven Australian Pgt and five Pst pathotypes through artificial inoculation under the greenhouse conditions using standard procedures. Ten all-stage stem rust resistance genes (Sr8a, Sr8b, Sr9b, Sr12, Sr17, Sr23, Sr24, Sr30, Sr31 and Sr38) and seven all-stage stripe rust resistance genes (Yr3, Yr4, Yr6, Yr9, Yr17, Yr27 and Yr34) were postulated either singly or in combinations based on seedling responses of test entries against pathotypes differing in virulence for commonly deployed genes. Sr30 and Sr38 were the most common stem rust resistance genes in this nursery. The Sr38-linked stripe rust resistance gene Yr17 was present in high proportion. The presence of rust resistance genes Sr24, Sr31/Yr9, Sr38/Yr17 and Yr4 were confirmed using the closely linked molecular markers. The adult plant resistance (APR) genes Sr2 and Lr34/Yr18/Sr57 were detected using linked molecular markers csSr2 and csLV34, respectively. Genotypes carrying combinations of stem rust and stripe rust resistance were identified for use as donor sources in breeding programs.


2021 ◽  
Vol 9 (4) ◽  
pp. 287-297
Author(s):  
Mehede Hassan Rubel ◽  
Denison Michael Immanuel Jesse ◽  
Ujjal Kumar Nath ◽  
Jung-Hee Jeong ◽  
Hoy-Taek Kim ◽  
...  

Author(s):  
Adel A. Elshafei ◽  
Waled M. El-Orabey ◽  
Fathallah B. Fathallah ◽  
Ramadan M. Esmail ◽  
Mohamed A. Abou-Zeid

2021 ◽  
Vol 11_2021 ◽  
pp. 56-62
Author(s):  
Gokhberg Ya.A. Gokhberg ◽  
Timofeeva A.V. Timofeeva ◽  
Kalinina E.A. Kalinina ◽  

2021 ◽  
Author(s):  
Anushri Umesh ◽  
Praveen Kumar Guttula ◽  
Mukesh Kumar Gupta

Bovine mastitis causes significant economic loss to the dairy industry by affecting milk quality and quantity. E.coli and S.aureus are the two common mastitis-causing bacteria among the consortia of mastitis pathogens, wherein E.coli is an opportunistic environmental pathogen, and S.aureus is a contagious pathogen. This study was designed to predict molecular markers of bovine mastitis by meta-analysis of differentially expressed genes (DEG) in E.coli or S.aureus infected mammary epithelial cells (MECs) using p-value combination and robust rank aggregation (RRA) methods. High throughput transcriptome of bovine (MECs, infected with E.coli or S.aureus, were analyzed, and correlation of z-scores were computed for the expression datasets to identify the lineage profile and functional ontology of DEGs. Key pathways enriched in infected MECs were deciphered by Gene Set Enrichment Analysis (GSEA), following which combined p-value and RRA were used to perform DEG meta-analysis to limit type I error in the analysis. The miRNA-Gene networks were then built to uncover potential molecular markers of mastitis. Lineage profiling of MECs showed that the gene expression levels were associated with mammary tissue lineage. The up-regulated genes were enriched in immune-related pathways whereas down-regulated genes influenced the cellular processes. GSEA analysis of DEGs deciphered the involvement of Toll-like receptor (TLR), and NF- Kappa B signalling pathway during infection. Comparison after meta-analysis yielded with genes ZC3H12A, RND1 and MAP3K8 having significant expression levels in both E.coli and S.aureus dataset and on evaluating miRNA-Gene network 7 pairs were common to both sets identifying them as potential molecular markers.


Author(s):  
Huỳnh Kỳ ◽  
Nguyễn Lộc Hiền ◽  
Văn Quốc Giang ◽  
Nguyễn Văn Mạnh ◽  
Chung Trương Quốc Khang ◽  
...  

Nghiên cứu đa dạng di truyền nhằm mục đích tìm ra mối quan hệ giữa các kiểu gen trong tập đoàn giống/dòng cây trồng, từ đó có thể đưa ra chiến lược chọn tạo giống, cải thiện nguồn gen. Nghiên cứu này đã sử dụng 09 chỉ thị phân tử SSR để đánh giá mức độ đa dạng di truyền của 120 giống/dòng đậu nành (Glycine max (L.) Merr.) đang được bảo tồn tại ngân hàng giống trường Đại học Cần Thơ. Kết quả điện di sản phẩm PCR bằng 09 chỉ thị phân tử SSR thu được 52 phân đoạn và tất cả 52 phân đoạn đều có tỷ lệ đa hình trung bình cao (100%). Chỉ số PIC dao động từ 0,05 (satt596) đến 0,46 (satt009), với giá trị trung bình là 0,21. Cây phả hệ được xây dựng dựa trên 09 chỉ thị SSR bằng phân tích nhóm UPGMA phân các mẫu thành 11 nhóm chính với hệ số di truyền trung bình là 0,7 và hệ số tương đồng dao động từ 0,47 - 0,87. Kết quả này cho thấy bộ sưu tập 120 giống/dòng đậu nành rất đa dạng về bản chất di truyền và có thể dùng làm vật liệu ban đầu cho công tác chọn tạo giống đậu nành trong tương lai. ABSTRACT Genetic diversity research aims to study the relationship between genotypes in the varieties/lines, as the results, a breeding strategy will be set up for genetic improvement. In this study, 09 SSR molecular markers were used to evaluate the genetic diversity of 120 soybean varieties/lines being conserved at the gene bank of Can Tho University. A total of 52 fragments were produced by 09 SSR primers with 100% polymorphism rate. The PIC index value was ranged from 0.05 (satt596) to 0.46 (satt009), the average PIC index was 0.21. Using UPGMA analysis showed that the phylogenetic tree was divided 120 soybean varieties/lines into 11 main groups with the average genetic coefficient of 0.7 and the similarity coefficient ranging from 0.47-0.87. Thus, this result showed that the collection of 120 soybean varieties/lines is very diverse in genetic background and can be used as a starting material for future soybean breeding.


Author(s):  
Songbao Zou ◽  
Rao Fu ◽  
Huiwen Deng ◽  
Qianqian Zhang ◽  
Eleni Gentekaki ◽  
...  

Based on phenotypic traits, traditional surveys usually characterize organismal richness, abundance, biomass, and growth potential to describe diversity, organization, and function of protistan populations and communities. The rRNA gene (rDNA) and its transcripts have been widely used as molecular markers in ecological studies of protists.


2021 ◽  
Author(s):  
Wang Xiaowei ◽  
Lu Tong ◽  
Qu Yanjun ◽  
Lili Fan

Abstract Background Ovarian cancer is a common gynecological disease and seriously endangers women's health. Currently, there is still a lack of effective molecular markers for the diagnosis and treatment of ovarian cancer. The present study aimed to investigate the molecular markers associated with ovarian cancer. Methods The molecular and gene related to ovarian cancer were extracted from GEO database and TCGA database by bioinformatics, and the related genes and functions were further analyzed. The results were verified by qPCR, WB, CCK-8 and Transwell experiments. Results Data analysis showed that PTH2R gene was highly expressed in tumors, and 51 HUB genes were obtained. Finally, experimental verification showed that PTH2R gene was highly expressed in ovarian cancer, and PTH2R gene was involved in the proliferation, invasion and metastasis of ovarian cancer cells. Conclusions After experimental verification, we found that knocking down the expression of PTH2R can inhibit the proliferation, invasion and migration of tumor cells.PTH2R is expected to become a new molecular marker for ovarian cancer.


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