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Relevant bibliographies by topics / Genic-SSRs

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Journal articles

Academic literature on the topic 'Genic-SSRs'

Author: Grafiati

Published: 3 June 2025

Last updated: 31 July 2025

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Journal articles on the topic "Genic-SSRs"

1

Sharma, Arti, and Rajinder Singh Chauhan. "Repertoire of SSRs in the Castor Bean Genome and Their Utilization in Genetic Diversity Analysis inJatropha curcas." Comparative and Functional Genomics 2011 (2011): 1–9. http://dx.doi.org/10.1155/2011/286089.

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Castor bean andJatrophacontain seed oil of industrial importance, share taxonomical and biochemical similarities, which can be explored for identifying SSRs in the whole genome sequence of castor bean and utilized inJatropha curcas. Whole genome analysis of castor bean identified 5,80,986 SSRs with a frequency of 1 per 680 bp. Genomic distribution of SSRs revealed that 27% were present in the non-genic region whereas 73% were also present in the putative genic regions with 26% in 5′UTRs, 25% in introns, 16% in 3′UTRs and 6% in the exons. Dinucleotide repeats were more frequent in introns, 5′UT

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2

Duhan, Naveen, and Rakesh Kaundal. "LegumeSSRdb: A Comprehensive Microsatellite Marker Database of Legumes for Germplasm Characterization and Crop Improvement." International Journal of Molecular Sciences 22, no. 21 (2021): 11350. http://dx.doi.org/10.3390/ijms222111350.

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Microsatellites, or simple sequence repeats (SSRs), are polymorphic loci that play a major role as molecular markers for genome analysis and plant breeding. The legume SSR database is a webserver which contains simple sequence repeats (SSRs) from genomes of 13 legume species. A total of 3,706,276 SSRs are present in the database, 698,509 of which are genic SSRs, and 3,007,772 are non-genic. This webserver is an integrated tool to perform end-to-end marker selection right from generating SSRs to designing and validating primers, visualizing the results and blasting the genomic sequences at one

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3

Wang, Qinglang, Xing’er Chen, Yue Meng, et al. "The Potential Role of Genic-SSRs in Driving Ecological Adaptation Diversity in Caragana Plants." International Journal of Molecular Sciences 25, no. 4 (2024): 2084. http://dx.doi.org/10.3390/ijms25042084.

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Caragana, a xerophytic shrub genus widely distributed in northern China, exhibits distinctive geographical substitution patterns and ecological adaptation diversity. This study employed transcriptome sequencing technology to investigate 12 Caragana species, aiming to explore genic-SSR variations in the Caragana transcriptome and identify their role as a driving force for environmental adaptation within the genus. A total of 3666 polymorphic genic-SSRs were identified across different species. The impact of these variations on the expression of related genes was analyzed, revealing a significan

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Li, Shengnan, Jiao Xu, Yipu Hu, et al. "Variation in SSRs at different genomic regions and implications for the evolution and identification of Armillaria gallica." PLOS ONE 19, no. 10 (2024): e0312114. http://dx.doi.org/10.1371/journal.pone.0312114.

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Armillaria spp. are devastating forest pathogens. Due to its low pathogenicity and abundant genetic variation, Armillaria gallica exhibited a unique and beneficial symbiosis with Gastrodia elata, which was used as a traditional Chinese medicine. However, the variation and population structure of A. gallica populations have rarely been investigated. Hence, we analyzed the evolution and variation in simple sequence repeats (SSRs) in three Armillaria genomes: A. gallica, A. cepistipes, and A. ostoyae to assess the genetic diversity and population structure of 14 A. gallica strains. Genome analysi

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5

Hanai, Luiz Ricardo, Tatiana de Campos, Luis Eduardo Aranha Camargo, et al. "Development, characterization, and comparative analysis of polymorphism at common bean SSR loci isolated from genic and genomic sources." Genome 50, no. 3 (2007): 266–77. http://dx.doi.org/10.1139/g07-007.

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Microsatellites or SSRs (single sequence repeats) have been used to construct and integrate genetic maps in crop species, including Phaseolus vulgaris . In the present study, 3 cDNA libraries generated by the Bean EST project ( http://lgm.esalq.usp.br/BEST/ ), comprising a unigene collection of 3126 sequences and a genomic microsatellite-enriched library, were analyzed for the presence of SSRs. A total of 219 expressed sequence tags (ESTs) were found to carry 240 SSRs (named EST-SSR), whereas 714 genomic sequences contained 471 SSRs (named genomic-SSR). A subset of 80 SSRs, 40 EST-SSRs, and 40

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6

Dang, Zhenhua, Lei Huang, Yuanyuan Jia, Peter J. Lockhart, Yang Fong, and Yunyun Tian. "Identification of Genic SSRs Provide a Perspective for Studying Environmental Adaptation in the Endemic Shrub Tetraena mongolica." Genes 11, no. 3 (2020): 322. http://dx.doi.org/10.3390/genes11030322.

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Tetraena mongolica is a xerophytic shrub endemic to desert regions in Inner Mongolia. This species has evolved distinct survival strategies that allow it to adapt to hyper-drought and heterogeneous habitats. Simple sequence repeats (SSRs) may provide a molecular basis in plants for fast adaptation to environmental change. Thus, identifying SSRs and their possible effects on gene behavior has the potential to provide valuable information for studies of adaptation. In this study, we sequenced six individual transcriptomes of T. mongolica from heterogeneous habitats, focused on SSRs located in ge

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7

Liu, Yan, Xiaoyan Xiao, Guangzhu Li, et al. "Comprehensive Analyses of Simple Sequence Repeat (SSR) in Bamboo Genomes and Development of SSR Markers with Peroxidase Genes." Genes 13, no. 9 (2022): 1518. http://dx.doi.org/10.3390/genes13091518.

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Simple sequence repeats (SSRs) are one of the most important molecular markers, which are widespread in plants. Bamboos are important forest resources worldwide. Here, the comprehensive identification and comparative analysis of SSRs were performed in three woody and two herbaceous bamboo species. Altogether 567,175 perfect SSRs and 71,141 compound SSRs were identified from 5737.8 Mb genome sequences of five bamboo species. Di-nucleotide SSRs were the most predominant type, with an average of ~50,152.2 per species. Most SSRs were located in intergenic regions, while those located in genic regi

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8

Bassil, Nahla V., B. Gilmore, J. M. Oliphant, K. E. Hummer, and J. A. Henning. "Genic SSRs for European and North American hop (Humulus lupulus L.)." Genetic Resources and Crop Evolution 55, no. 7 (2008): 959–69. http://dx.doi.org/10.1007/s10722-007-9303-9.

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9

Pushpavalli, SNCVL, T. Rajeshwar Reddy, B. Pranitha, C. Sudhakar, C. Sudharani, and P. Satish. "Assessment of Molecular Diversity in Popular Pigeonpea Genotypes using Genic Microsatellite Markers." Journal of Advances in Biology & Biotechnology 27, no. 8 (2024): 1203–11. http://dx.doi.org/10.9734/jabb/2024/v27i81244.

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Fusarium wilt is an important soil borne disease of pigeonpea causing significant yield losses in susceptible cultivars throughout the pigeonpea growing areas. Thirty one diverse pigeonpea genotypes were screened for wilt resistance and analyzed using 14 genic SSRs which included five SSR markers that were reported to differentiate resistant and susceptible genotypes. Polymorphic information content ranged from 0.69 to 0.90 and SSR marker ASSR-352 displayed the highest PIC value of 0.90. Dissimilarity coefficient ranged from 0.4 to 0.93. Earlier studies have identified ASSR 352 as one of the h

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10

Sarac, Zorica, Jelena Aleksic, Tanja Dodos, Nemanja Rajcevic, Srdjan Bojovic, and Petar Marin. "Cross-species amplification of nuclear EST-microsatellites developed for other Pinus species in Pinus nigra." Genetika 47, no. 1 (2015): 205–17. http://dx.doi.org/10.2298/gensr1501205s.

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Due to the current lack of nuclear microsatellites (simple sequence repeats - SSRs) specifically developed for Pinus nigra, an important European coniferous species, we cross-species amplified 12 EST-SSRs (expressed sequence tagged SSRs) developed for other Pinus species in P. nigra in order to delineate loci which can be used for assessing levels of genetic diversity and genetic structuring in this species. We amplified these loci in individuals from seven populations from the central Balkans representing four recognized infraspecific taxa of P. nigra (ssp. nigra, var. gocensis, ssp. pallasia

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