Article
Agriculture, Dairy & Animal Science
Ju Qiu, Rui Guo, Yidan Li, Yuyao Zhang, Kangsheng Jia, Yinghu Lei, Linsen Zan, Anning Li
Summary: The golden takin, an endemic ruminant species, has been listed as endangered and vulnerable. This study used RNA sequencing and microsatellite prediction to assess the transcriptome of its muscles, providing valuable genetic information for conservation efforts and further studies on takins.
Article
Plant Sciences
Mengli Ma, Hengling Meng, En Lei, Tiantao Wang, Wei Zhang, Bingyue Lu
Summary: Amomum tsaoko is a medicinal and food dual-use crop belonging to the Zingiberaceae family. This study provides transcriptome data and newly developed EST-SSR markers for germplasm evaluation, genetic diversity, and molecular marker-assisted selection in A. tsaoko.
Article
Genetics & Heredity
Niyan Xiang, Bojie Lu, Tao Yuan, Tiange Yang, Jiani Guo, Zhihua Wu, Hong Liu, Xing Liu, Rui Qin
Summary: This study made progress in the molecular genetics and evolution research of the unique Chinese plant Chrysosplenium macrophyllum through transcriptome sequencing and EST-SSR markers, and found a high level of genetic diversity in C. macrophyllum. These developed molecular markers will be significant for the study of genetic diversity and evolutionary history of C. macrophyllum and other Chrysosplenium species.
Article
Parasitology
Min Kyu Sang, Hongray Howrelia Patnaik, Jie Eun Park, Dae Kwon Song, Jun Yang Jeong, Chan Eui Hong, Yong Tae Kim, Hyeon Jun Shin, Liu Ziwei, Hee Ju Hwang, So Young Park, Se Won Kang, Seung-Hwan Park, Sung-Jae Cha, Jung Ho Ko, E. Hyun Shin, Hong Seog Park, Yong Hun Jo, Yeon Soo Han, Bharat Bhusan Patnaik, Yong Seok Lee
Summary: The study used high-throughput sequencing and data analysis to explore the genetic resources and potential adaptation-related genes of Haemaphysalis flava ticks. The researchers identified various gene families and repetitive sequences, providing valuable information for studying tick biology and disease transmission.
PARASITES & VECTORS
(2023)
Article
Genetics & Heredity
Xiaodong Wang, Yongguang Xie, Wei Hu, Zhaoyu Wei, Xiuying Wei, Hong Yuan, Hongyan Yao, Chen Dunxue
Summary: In this study, we constructed the expression profile of the giant spiny frog using high-throughput RNA sequencing and identified potential molecular markers for artificial breeding and species conservation. The transcriptomic profile and SSR repertoire obtained will facilitate population genetics and selective breeding of amphibian species.
Article
Genetics & Heredity
L. Sahoo, S. P. Das, A. Bit, S. Patnaik, M. Mohanty, G. Das, P. Das
Summary: By analyzing the transcriptomes of Labeo rohita, a variety of genetic information related to genetic improvement, including SSRs and SNPs, were identified and the reliability of these genetic markers was verified. In addition, transcription factors that may influence genetic improvement of Labeo rohita were also discovered in this study.
Article
Materials Science, Textiles
Gang Gao, Chunming Yu, Jikang Chen, Kunmei Chen, Xiaofei Wang, Aiguo Zhu, Ping Chen
Summary: SSRs were identified in A.hendersonii leaves based on transcriptomic data, resulting in the discovery of 50,957 unigenes containing 5,660 SSR motifs. The most prevalent repeat motifs were dinucleotides, with AG/CT and A/T being the dominant repeats. Genetic relationship analysis showed A.hendersonii and A.venetum grouped into different clades, with regional variations in subgroup clustering. These identified SSR markers have potential applications in genetic identification, diversity analysis, and marker-assisted breeding in Apocynum species.
JOURNAL OF NATURAL FIBERS
(2023)
Article
Agronomy
Tae-Heon Kim, Young-Mi Yoon, Jin-Cheon Park, Jong-Ho Park, Kyong-Ho Kim, Yang-Kil Kim, Jae-Han Son, Tae-Il Park
Summary: This study used transcriptome sequencing to investigate the seedling stage of oat and developed 30 dCAPS markers, which are important for oat genetic analysis, cultivar identification, and breeders' rights protection.
Article
Multidisciplinary Sciences
Hanqing Tang, Josphat K. Saina, Zhi-Cheng Long, Jinming Chen, Can Dai
Summary: This study assembled transcriptome sequences of Sagittaria trifolia and developed effective EST-SSR markers. A total of 86 microsatellite loci were identified and verified for their stable and polymorphic bands. These markers could be useful for examining population genetic structure, differentiation, and parentage analyses in ecological and evolutionary studies of S. trifolia.
Article
Plant Sciences
Bishun Deo Prasad, Sangita Sahni, Priti Krishna, Diksha Kumari, Ajay Kumar Mahato, Sanjay J. Jambhulkar, Pankaj Kumar, Tushar Ranjan, Awadhesh Kumar Pal
Summary: Safflower is known for its drought tolerance and oil quality, and the use of functional genomics in current plant breeding approaches is important in the face of climate change challenges. Research has shown that enhancing plant steroid hormones like brassinosteroids can increase crop yields and confer broad stress tolerance. However, there is currently a lack of information on the brassinosteroid biosynthesis and signaling pathways in safflower.
JOURNAL OF PLANT GROWTH REGULATION
(2022)
Article
Biochemistry & Molecular Biology
Deepthi Padmanabhan, Adil Lateef, Purushothaman Natarajan, Senthilkumar Palanisamy
Summary: This study aimed to analyze the genes involved in various pathways of the medicinal plant Justicia adhatoda. Through transcriptome sequencing and analysis, key enzymes and pathways related to tryptophan biosynthesis were identified. The study also identified a large number of SSR markers that could be used in molecular breeding.
MOLECULAR BIOLOGY REPORTS
(2022)
Article
Biochemistry & Molecular Biology
Ramon E. Rivera-Vicens, Catalina A. Garcia-Escudero, Nicola Conci, Michael Eitel, Gert Woerheide
Summary: The use of RNA sequencing and de novo transcriptome assembly is crucial for ecological and evolutionary studies, especially for nonmodel organisms lacking genome information. A multi-assembler approach, followed by a reduction step, is often employed to improve the assembly quality. TransPi is a comprehensive pipeline for de novo transcriptome assembly that achieves higher completeness percentages and reduces duplication rates compared to single assembler approaches. It is easy to configure and can be seamlessly deployed using Conda, Docker, and Singularity.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Plant Sciences
Wei Long, Xiaohua Yao, Kailiang Wang, Yu Sheng, Leyan Lv
Summary: In this study, the gene expression and global gene expression profiles during Camellia oleifera seed germination were analyzed using transcriptome sequencing. Differentially expressed genes were identified, indicating the role of cotyledons in seed germination and seedling growth. This study will contribute to the breeding and cultivation of C. oleifera.
Article
Biochemistry & Molecular Biology
Qi Zhou, Peng-Yan Zhou, Wen-Tao Zou, Yin-Gang Li
Summary: High-throughput sequencing of the Phoebe bournei transcriptome led to the identification of novel SSR markers, and genetic analyses revealed significant genetic differences among populations, with the YS population from Jiangxi province showing the highest genetic diversity.
MOLECULAR BIOLOGY REPORTS
(2021)
Article
Biochemistry & Molecular Biology
Jing Yang, Weiqiang Luo, Yangyang Geng, Hao Wei, Junjian Wang, Mengxi Gao, Jie Tang, Mengyu Li, Yan Wang, Xingrong Yan
Summary: In this study, a cDNA library for transcriptome sequencing was constructed using bone marrow derived mesenchymal cells, and 9 polymorphic SSR markers were developed to detect population genetic diversity of forest musk deer.
BIOCHEMICAL GENETICS
(2023)