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1. Developing KASP Markers for Identification of Basmati Rice Varieties

Author:
Steele, Katherine; Tulloch, Mark Quinton; Burns, Malcolm; Nader, Werner
Source:
Food analytical methods 2021 v.14 no.4 pp. 663-673
ISSN:
1936-9751
Subject:
microsatellite repeats,   etc   ; genotyping; industry; rice;     Show all 4 Subjects
Abstract:
... Authentication of Basmati rice has relied on microsatellite markers since 2004, but microsatellites cannot distinguish between all of the forty-one Basmati varieties approved in 2017. This study investigated whether single nucleotide polymorphisms (SNP) and insertion/deletion (InDel) variations developed into KASP™ (Kompetitive Allele Specific PCR; LGC Biosearch Technologies) could be used to dist ...
DOI:
10.1007/s12161-020-01892-3

2. Assessment of Genetic Purity in Rice Using Polymorphic SSR Markers and Its Economic Analysis with Grow-Out-Test

Author:
Kumar, S. P. Jeevan; Susmita, C.; Agarwal, Dinesh K.; Pal, Govind; Rai, Abhishek Kumar; Simal-Gandara, Jesus
Source:
Food analytical methods 2021 v.14 no.5 pp. 856-864
ISSN:
1936-9751
Subject:
microsatellite repeats,   etc   ; DNA; economic analysis; oligodeoxyribonucleotides; rice;     Show all 5 Subjects
Abstract:
... Genetic purity is conventionally performed through grow-out-test (GOT) with morphological characters. Simple sequence repeat (SSR) markers are independent of G X E interaction. Herewith, 16 high yielding varieties of rice were analysed using 55 SSR markers for DNA fingerprinting and identification of genetic impurities: 14 were found to be polymorphic and amplified 48 alleles with an average of 3. ...
DOI:
10.1007/s12161-020-01927-9

3. Genetic Structure of the Population of Holstein Black-and-White Cattle by Microsatellite Loci

Author:
Shatalina, O. S.; Tkachenko, I. V.; Yaryshkin, A. A.
Source:
Russian journal of genetics 2021 v.57 no.2 pp. 196-203
ISSN:
1022-7954
Subject:
microsatellite repeats,   etc   ; Holstein; alleles; cattle; heterozygosity; loci;     Show all 6 Subjects
Abstract:
... This article presents the results of a study of the genetic structure of a cattle population at 12 microsatellite loci. The object of the study was 702 specimens of cattle of Holstein black-motley breed. It was found that on average the heterozygosity of animals at the loci was 78.3%. The average number of alleles per locus was 7.0 ± 0.08. The most widespread in the population was the 248 bp allel ...
DOI:
10.1134/S1022795421020095

4. Sequence-dependent nucleosome formation in trinucleotide repeats evaluated by in vivo chemical mapping

Author:
Katsumata, Koji; Ichikawa, Yuichi; Fuse, Tomohiro; Kurumizaka, Hitoshi; Yanagida, Akio; Urano, Takeshi; Kato, Hiroaki; Shimizu, Mitsuhiro
Source:
Biochemical and biophysical research communications 2021 v.556 pp. 179-184
ISSN:
0006-291X
Subject:
microsatellite repeats,   etc   ; DNA; genome; histones; nucleosomes; research; yeasts;     Show all 7 Subjects
Abstract:
... Trinucleotide repeat sequences (TRSs), consisting of 10 unique classes of repeats in DNA, are members of microsatellites and abundantly and non-randomly distributed in many eukaryotic genomes. The lengths of TRSs are mutable, and the expansions of several TRSs are implicated in hereditary neurological diseases. However, the underlying causes of the biased distribution and the dynamic properties of ...
DOI:
10.1016/j.bbrc.2021.03.155

5. Development of new microsatellite loci for wing dimorphic crickets Velarifictorus aspersus and their cross-utility in other Gryllidae species

Author:
Zeng, Yang; Zhou, Ze-Lin; He, Yi-Yuan; Zhu, Dao-Hong
Source:
Journal of Asia-Pacific entomology 2021
ISSN:
1226-8615
Subject:
microsatellite repeats,   etc   ; Gryllidae; entomology; genetic variation; sperm competition; transcriptome;     Show all 6 Subjects
Abstract:
... Microsatellite markers have been used extensively in studies of sperm competition and the genetic diversity of organisms. In the present study, we performed transcriptome sequencing for Velarifictorus aspersus and developed simple sequence repeat markers to identify valuable markers for genetic studies. The average total length of the V. aspersus transcriptome sequence was 7.70 Gb and it contained ...
DOI:
10.1016/j.aspen.2021.04.007

6. Development and characterization of 14 novel microsatellite markers for an invasive goby (Tridentiger bifasciatus) in water transfer system

Author:
Jiao, Qin; Bjorn Victor, Schmidt; Fei, Cheng; Songguang, Xie
Source:
Journal of applied ichthyology 2021 v.37 no.2 pp. 314-317
ISSN:
0175-8659
Subject:
microsatellite repeats,   etc   ; Tridentiger; ichthyology; invasive species; lakes; loci; China;     Show all 7 Subjects
Abstract:
... Genetic patterns observed among populations by neutral molecular markers is a major method used to reconstruct the invasion history of invasive species. The Shimofuri goby (Tridentiger bifasciatus) has invaded several lakes along the East Route of the South‐to‐North Water Transfer Project, China (ENST). However, neutral molecular markers for this goby are not currently available. In this study, fo ...
DOI:
10.1111/jai.14185

7. SSR markers assay-based establishment of distinctness, uniformity and stability of dolichos bean [Lablab purpureus (L.) Sweet var. Lignosus] advanced breeding lines and elite germplasm accessions

Author:
Desai, Shrikrishna P.; Ramesh, S.; Vaijayanthi, P. V.; Mohan Rao, A.; Chandana, B. R.; Gonal, Basanagouda
Source:
Genetic resources and crop evolution 2021 v.68 no.4 pp. 1309-1314
ISSN:
0925-9864
Subject:
microsatellite repeats,   etc   ; Lablab purpureus; Lignosus; evolution; genetic markers; germplasm; homozygosity;     Show all 7 Subjects
Abstract:
... Registration of crop varieties under Indian PPV & FR Act requires establishment of their Distinctiveness, Uniformity and Stability (DUS). At present, DUS of crop varieties are being established using morphological traits. DNA marker assay-based DUS testing would complement that based on morphological traits. Four markers, from a total of 220 tested SSR markers were polymorphic among two advanced b ...
DOI:
10.1007/s10722-021-01128-1

8. Small molecule-induced trinucleotide repeat contractions during in vitro DNA synthesis

Author:
Dohno, Chikara; Hagihara, Masaki; Binti Mohd Zaifuddin, Nursakinah; Nihei, Mizuki; Saito, Kaoru; Nakatani, Kazuhiko
Source:
Chemical communications 2021 v.57 no.26 pp. 3235-3238
ISSN:
1364-548X
Subject:
microsatellite repeats,   etc   ; DNA; DNA replication; capillary electrophoresis; ligands;     Show all 5 Subjects
Abstract:
... We demonstrated that a synthetic ligand NA, which selectively binds to a 5′-CAG-3′/5′-CAG-3′ triad, induced repeat contractions during DNA polymerase-mediated primer extension through the CAG repeat template. A thorough capillary electrophoresis and sequencing analysis revealed that the d(CAG)₂₀ template gave shortened nascent strands mainly containing 3–6 CTG units in the presence of NA. ...
DOI:
10.1039/d1cc00349f

9. Use of Inter Simple Sequence Repeat (ISSR) Markers to Assess the Genetic Diversity of Panax bipinnatifidus Seem. Collected from Northern Vietnam

Author:
Hoi, Q. V.; Tien, T. V.; Trieu, L. N.; Duy, N. V.; Chac, L. D.; Chinh, H. V.; Thinh, B. B.
Source:
Russian journal of genetics 2021 v.57 no.3 pp. 341-347
ISSN:
1022-7954
Subject:
microsatellite repeats,   etc   ; Panax bipinnatifidus; gene flow; genes; genetic variation; Vietnam;     Show all 6 Subjects
Abstract:
... Panax bipinnatifidus Seem. is a medical plant which has been used as treatment for medical diseases and health maintenance for aged people. The species was listed among Critically Endangered (CR) plants in 2007 Vietnam’s Red Data Book. Inter simple sequence repeat (ISSR) markers were first used to investigate genetic diversity of naturally distributed P. bipinnatifidus which was classified by 2 ag ...
DOI:
10.1134/S1022795421030091

10. Satellite swarm survey and new conceptual design for Earth observation applications

Author:
Farrag, A.; Othman, Saed; Mahmoud, Tarek; ELRaffiei, Ahmed Y.
Source:
The Egyptian Journal of Remote Sensing and Space Sciences (Online) 2021 v.24 no.1 pp. 47-54
ISSN:
1110-9823
Subject:
microsatellite repeats,   etc   ; fractionation; image analysis; radio waves; satellites; surveys;     Show all 6 Subjects
Abstract:
... The new trend in Earth observation applications is to use a set of low-cost, simple and short development time satellites. A Swarm mission of twelve CubeSats as imaging nodes, besides, hub Microsatellite was already proposed to fulfill the earth observation mission called Fractionated Imaging Satellite Cluster (FIC). The weakest point in that proposal was the using of an optical communication link ...
DOI:
10.1016/j.ejrs.2019.12.003

11. A study on the role of FMR1 CGG trinucleotide repeats in Jordanian poor ovarian responders

Author:
Batiha, Osamah; Shaaban, Sherin T.; Al-Smadi, Mohammad; Jarun, Yousef; Maswadeh, Ahmad; Alahmad, Nour Alhoda; Al-Talib, Mohammad M
Source:
Gene 2021 v.767 pp. 145174
ISSN:
0378-1119
Subject:
microsatellite repeats,   etc   ; alleles; behavior disorders; correlation; females; oocytes; prediction;     Show all 7 Subjects
Abstract:
... The expansion of trinucleotide CGG repeats in the promoter of fragile X mental retardation 1 (FMR1) gene is associated with fragile X and fragile X associated tremor/ataxia syndromes. While the expansion of CGG repeats has been associated with such neuro/psychiatric diseases, the contraction of CGG repeats has been recently suggested as an indication of ovarian dysfunction. This study aimed to eva ...
DOI:
10.1016/j.gene.2020.145174

12. Disentangling the Impacts of Speciation, Sympatry and the Island Effect on the Morphology of Seven Hynobius sp. Salamanders

Author:
Borzée, Amaël; Min, Mi-Sook
Source:
Animals 2021 v.11 no.1
ISSN:
2076-2615
Subject:
microsatellite repeats,   etc   ; Hynobius; allopatry; landscapes; sympatry; Korean Peninsula;     Show all 6 Subjects
Abstract:
... Closely related individuals from different areas can see their morphologies change based on differences between clades, but also ecological variables such as the island effect or sympatry. This is the case of salamanders, which have adapted to a broad range of ecological niches, ranging from underground dwellers in xeric landscape to tropical arboreal habitats. On the Korean Peninsula, salamanders ...
DOI:
10.3390/ani11010187

13. Molecular analysis of cryptosporidiosis cases in Western Australia in 2019 and 2020 supports the occurrence of two swimming pool associated outbreaks and reveals the emergence of a rare C. hominis IbA12G3 subtype

Author:
Braima, Kamil; Zahedi, Alireza; Egan, Siobhon; Austen, Jill; Xiao, Lihua; Feng, Yaoyu; Witham, Benjamin; Pingault, Nevada; Perera, Shalinie; Oskam, Charlotte; Reid, Simon; Ryan, Una
Source:
Infection, genetics, and evolution 2021 v.92 pp. 104859
ISSN:
1567-1348
Subject:
microsatellite repeats,   etc   ; DNA; Protozoa; chlorine; cryptosporidiosis; evolution; gastroenteritis; genes; genetic variation; glycoproteins; loci; parasites; Western Australia;     Show all 13 Subjects
Abstract:
... Cryptosporidium is an important protozoan parasite and due to its resistance to chlorine is a major cause of swimming pool-associated gastroenteritis outbreaks. The present study combined contact tracing and molecular techniques to analyse cryptosporidiosis cases and outbreaks in Western Australia in 2019 and 2020. In the 2019 outbreak, subtyping at the 60 kDa glycoprotein (gp60) gene identified 8 ...
DOI:
10.1016/j.meegid.2021.104859

14. North-south and climate-landscape-associated pattern of population structure for the Atlantic Forest White Morpho butterflies

Author:
Leme Pablos, Julia; Kristina Silva, Ana; Seraphim, Noemy; de Moraes Magaldi, Luiza; Pereira de Souza, Anete; Victor Lucci Freitas, André; Lucas Silva-Brandão, Karina
Source:
Molecular phylogenetics and evolution 2021 v.161 pp. 107157
ISSN:
1055-7903
Subject:
microsatellite repeats,   etc   ; Bayesian theory; forests; genetic structure; genetic variation; monophyly; population structure; species diversity; Brazil;     Show all 9 Subjects
Abstract:
... Atlantic Forest White Morpho butterflies, currently classified as Morpho epistrophus and M. iphitus, are endemic to the Atlantic Forest, where they are widely distributed throughout heterogeneous environmental conditions. Studies with endemic butterflies allow to elucidate questions on both patterns of diversity distribution and current and past processes acting on insect groups in this biodiversi ...
DOI:
10.1016/j.ympev.2021.107157

15. Occurrence and distribution of compound microsatellites in the genomes of three economically important virus families

Author:
Jain, Ankit; Sharma, Prakash C.
Source:
Infection, genetics, and evolution 2021 v.92 pp. 104853
ISSN:
1567-1348
Subject:
microsatellite repeats,   etc   ; Anelloviridae; Circoviridae; Parvoviridae; crossing over; evolution; genome; genomics; infection; livestock; nucleotides; viruses;     Show all 12 Subjects
Abstract:
... Microsatellites are nonrandom hypervariable iterations of one to six nucleotides, existing across the coding as well as noncoding regions of virtually all known genomes, arising primarily due to polymerase slippage and unequal crossing over during replication events. Two or more perfect microsatellites located in close proximity form compound microsatellites. We studied the distribution of compoun ...
DOI:
10.1016/j.meegid.2021.104853

16. Phylogenomic resolution of the Ceratitis FARQ complex (Diptera: Tephritidae)

Author:
Zhang, Yue; De Meyer, Marc; Virgilio, Massimiliano; Feng, Shiqian; Badji, Kemo; Li, Zhihong
Source:
Molecular phylogenetics and evolution 2021 v.161 pp. 107160
ISSN:
1055-7903
Subject:
microsatellite repeats,   etc   ; ; frugivores; gene flow; genes; introgression; mitochondria; mitochondrial genome; monophyly; paraphyly; Africa;     Show all 11 Subjects
Abstract:
... The Ceratitis FARQ complex (formerly FAR complex) includes four frugivorous tephritids, Ceratitis fasciventris, C. anonae, C. rosa and C. quilicii, the latter two causing important agricultural losses in Africa. Although FARQ species can be identified on the basis of subtle morphological differences, they cannot be resolved as monophyletic when trying phylogenetic tree reconstructions based on mit ...
DOI:
10.1016/j.ympev.2021.107160

17. Diagnostic and therapeutic values of PMEPA1 and its correlation with tumor immunity in pan-cancer

Author:
Wang, Bin; Zhong, Jun-Long; Li, Hui-Zi; Wu, Biao; Sun, Di-Fang; Jiang, Ning; Shang, Jie; Chen, Yu-Feng; Xu, Xiang-He; Lu, Hua-Ding
Source:
Life sciences 2021 v.277 pp. 119452
ISSN:
0024-3205
Subject:
microsatellite repeats,   etc   ; adenocarcinoma; androgens; databases; gene expression regulation; immunity; prognosis; therapeutics; transmembrane proteins; trifluoperazine;     Show all 10 Subjects
Abstract:
... The prostate transmembrane protein, androgen induced 1 (PMEPA1) is differentially expressed in pan-cancer. However, PMEPA1 specific role in cancers has not been fully clarified. This study aims to explore the potential role of Pmepa1 in pan-cancer and specific cancer, with a view to deepening the research on the pathological mechanism of cancer.The Perl language and R language were used to identif ...
DOI:
10.1016/j.lfs.2021.119452

18. Genome-wide identification of microsatellite and development of polymorphic SSR markers for spotted sea bass (Lateolabrax maculatus)

Author:
Sigang, Fan; Hao, Huang; Yong, Liu; Pengfei, Wang; Chao, Zhao; Lulu, Yan; Xiuting, Qiao; Qiu, Lihua
Source:
Aquaculture reports 2021 v.20 pp. 100677
ISSN:
2352-5134
Subject:
microsatellite repeats,   etc   ; Lateolabrax japonicus; Micropterus salmoides; bass; genetic improvement; genetic variation; genomics; mariculture; China;     Show all 9 Subjects
Abstract:
... The spotted sea bass (Lateolabrax maculatus) is a valuable commercial mariculture fish in China and has huge potential for future genetic improvement. However, only limited number of SSR (simple sequence repeat) markers have been developed for L. maculatus. In this study, a total of 220,709 SSRs were identified from the L. maculatus genome. The total length, density and frequency of SSRs were 5,11 ...
DOI:
10.1016/j.aqrep.2021.100677

19. Defining criteria for the reintroduction of locally extinct populations based on contemporary and ancient genetic diversity: The case of the Adriatic Beluga sturgeon (Huso huso)

Author:
Boscari, Elisa; Marino, Ilaria A. M.; Caruso, Chiara; Gessner, Jörn; Lari, Martina; Mugue, Nikolai; Barmintseva, Anna; Suciu, Radu; Onara, Dalia; Zane, Lorenzo; Congiu, Leonardo
Source:
Diversity & distributions 2021 v.27 no.5 pp. 816-827
ISSN:
1366-9516
Subject:
microsatellite repeats,   etc   ; Huso huso; breeding stock; genetic analysis; genetic variation; genomics; mitochondria; museums;     Show all 8 Subjects
Abstract:
... AIM: The restoration of the extinct Adriatic population of Beluga sturgeon, an iconic species with economic and traditional relevance, is a priority in upcoming conservation strategies but it must not occur without deep prior knowledge on the current diversity distribution. We defined informed criteria for the reintroduction of Beluga in Italian rivers by analysing its contemporary and ancient div ...
DOI:
10.1111/ddi.13230

20. Development and characterization of 33 polymorphic microsatellite markers in Trachurus japonicus by SLAF‐seq technology

Author:
Niu, Su‐Fang; Zhai, Yun; Wu, Ren‐Xie; Liang, Zhen‐Bang; Zhang, Hao‐Ran; Li, Zhong‐Lu; Qiu, Qi; Zhou, Ling‐Li
Source:
Journal of applied ichthyology 2021 v.37 no.2 pp. 308-313
ISSN:
0175-8659
Subject:
microsatellite repeats,   etc   ; Trachurus japonicus; fish; genetic variation; heterozygosity; ichthyology; Pacific Ocean;     Show all 7 Subjects
Abstract:
... Trachurus japonicus is an economically important fish in the northwestern Pacific Ocean. However, its resources have declined seriously and there is an urgent need for a wide‐range of investigations of the existing genetic resources. This requires a large number of diverse molecular markers with high discriminating power. In this study, we identified 43,264 perfect SSRs in T. japonicus genome usin ...
DOI:
10.1111/jai.14158