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Relevant bibliographies by topics / Simple Sequence Repeat (SSR)

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Academic literature on the topic 'Simple Sequence Repeat (SSR)'

Author: Grafiati

Published: 4 June 2021

Last updated: 5 February 2022

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Journal articles on the topic "Simple Sequence Repeat (SSR)"

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SINGH, ALOK KUMAR, N. K. SINGH, V. K. SINGH, D. P. SINGH, and N. P. SINGH. "Tools for simple sequence repeat (SSR) markers." AGRICULTURE UPDATE 11, no. 2 (May 15, 2016): 163–72. http://dx.doi.org/10.15740/has/au/11.2/163-172.

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Krenz, J. D., R. D. Semlitsch, H. C. Gerhardt, and P. A. Mahoney. "Isolation and characterization of simple sequence repeat loci in the gray tree frog, Hyla chrysoscelis." Genome 42, no. 4 (August 1, 1999): 676–80. http://dx.doi.org/10.1139/g98-166.

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A gray tree frog (Hyla chrysoscelis) genomic library was constructed and characterized with regard to the incidence and complexity of simple sequence repeat (SSR) loci. The partial genomic library, containing approximately 10 000 clones with an average-sized insert of 350 bp, was screened with six SSR repeat oligonucleotides (AC, AG, ACG, AGC, AAC, and AAG). Screening identified 31 unique positive clones containing 41 SSR loci. Sequences of tandemly arrayed dinucleotide repeats were more common (36 of 41) than trinucleotide repeats. Twenty-six loci were identified using the AC dinucleotide probe, while 7 loci were identified using the AG dinucleotide probe. An additional 3 AT dinucleotide loci were serendipitously identified. The AT repeats generally comprised the longest dinucleotide repeat loci. The SSR repeat loci reported here should provide potent markers for identity, parentage, and short-lineage determinations in large-scale experiments using gray tree frogs.Key words: Hyla chrysoscelis, simple sequence repeat, SSR, gray tree frog, microsatellite.

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Kwon, Yong-Sham, Eun-Kyung Park, Kyung-Mi Bae, Seung-In Yi, Soon-Gi Park, and Il-Ho Cho. "Use of Simple Sequence Repeat (SSR) Markers for Variety Identification of Tomato (Lycopersicon esculentum)." Journal of Plant Biotechnology 33, no. 4 (December 30, 2006): 289–95. http://dx.doi.org/10.5010/jpb.2006.33.4.289.

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SAPTADI, DARMAWAN, R. R. SRI HARTATI, ASEP SETIAWAN, BAMBANG HELIYANTO, and SUDARSONO SUDARSONO. "PENGEMBANGAN MARKA SIMPLE SEQUENCE REPEAT UNTUK Jatropha spp." Jurnal Penelitian Tanaman Industri 17, no. 4 (June 19, 2020): 140. http://dx.doi.org/10.21082/jlittri.v17n4.2011.140-149.

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<p>ABSTRAK</p><p>Pemuliaan tanaman jarak pagar (Jatropha curcas L.) untukmenghasilkan varietas berdaya hasil dan berkadar minyak tinggi perludilakukan. Penggunaan marka molekuler dapat membantu mempercepattercapainya tujuan pemuliaan tanaman jarak pagar. Marka simple sequencerepeat (SSR) merupakan marka ko-dominan yang efektif untuk mendu-kung program pemuliaan tanaman, tetapi penerapannya pada jarak pagarmasih terbatas. Penelitian yang dilakukan bertujuan untuk : (i) merancangprimer spesifik SSR menggunakan aksesi DNA jarak pagar yang tersediadi GenBank DNA database dan (ii) mengevaluasi efektivitas pasanganprimer yang dirancang untuk menghasilkan marka SSR yang polimorfikuntuk jarak pagar dan J. multifida. Dua puluh delapan pasang primerspesifik SSR telah berhasil dirancang menggunakan aksesi DNA asal jarakpagar yang ada di GenBank DNA database. DNA genomik jarak pagar danJ. multifida yang diisolasi dapat digunakan sebagai templat untukamplifikasi PCR. Dari 28 pasang primer yang dikembangkan, semuanyamampu menghasilkan marka SSR dari genom jarak pagar dan hanya 19pasang primer yang menghasilkan marka SSR dari genom J. multifida.Dari 19 pasangan primer spesifik SSR yang dievaluasi mampu dihasilkan44 alel dengan ukuran produk amplifikasi berkisar antara 100-360 bp.Sebanyak 35 alel (79,5%) yang diamati merupakan alel yang polimorfik.Marka SSR yang didapatkan tidak polimorfik intra-aksesi jarak pagar atauintra-aksesi J. multifida tetapi polimorfik untuk inter-aksesi kedua spesies.Karena marka SSR yang dihasilkan bersifat polimorfik untuk aksesi jarakpagar dengan aksesi J. multifida maka dapat digunakan sebagai markauntuk mendeteksi hasil persilangan F 1 inter-spesies J. curcas x J. multifida.</p><p>Kata kunci : Jatropha curcas L., jarak pagar, J. multifida, DNA berulang,rancangan primer</p><p>ABSTRACT</p><p>Development of Simple Sequence Repeat Markers forJatropha spp.</p><p>Breeding of physic nut (Jatropha curcas L.) to obtain new varietiesthat are high in yield and oil content needs to be conducted. Molecularmarker could be used to assist breeding of physic nut (J. curcas). Simplesequence repeat (SSR) marker is a co-dominant marker and theoretically itcould be used to support physic nut breeding program. However, onlylimited information has been available regarding molecular analysis ofphysic nut. The objectives of this research were: (i) to design SSR specificprimer based on DNA sequences available in the GenBank DNA databaseand (ii) to evaluate effectiveness of the primer pairs to produce polymor-phic SSR markers for J. curcas and J. multifida. Twenty eight primer pairswere designed and developed using physic nut DNA available in theGenBank DNA database. Total genomic DNA isolated from J. curcas andJ. multifida could be used as DNA templates for PCR amplification. Of the28 primer pairs developed in this research yielded SSR marker using J.curcas genomic DNA, while only 19 out of 28 pairs yielded SSR markersusing J. multifida genomic DNA. As many as 44 alleles with the size ofamplified products ranged from 100-360 bp were identified. Thirty fivealleles (79.5%) out of 44 identified ones were polymorphic. Results ofanalysis indicated that identified SSR markers generated using thedesigned primers were not polymorphic intra accession of J. curcas norintra-accession of J. multifida either. However, the generated SSR markerswere polymorphic for inter-accession of the two Jatropha species. Sincethe generated markers were only polymorphic for J. curcas and J.multifida, they could be used as markers for identifying interspecific F 1hybrids derived from crossing between J. curcas and J. multifida.</p><p>Key words: Jatropha curcas L., physic nut, J. multifida, DNA repeatsequence, primer design</p>

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van der Nest, M. A., E. T. Steenkamp, B. D. Wingfield, and M. J. Wingfield. "Development of simple sequence repeat (SSR) markers in Eucalyptus from amplified inter-simple sequence repeats (ISSR)." Plant Breeding 119, no. 5 (October 2000): 433–36. http://dx.doi.org/10.1046/j.1439-0523.2000.00515.x.

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Sipahi, Hülya, Ayşen Yumurtaci, and Zafer Mert. "Development of novel markers, using computationally extracted classi type EST-SSRs, in wheat leaf rust fungus Puccinia triticina." Genetika 47, no. 3 (2015): 917–26. http://dx.doi.org/10.2298/gensr1503917s.

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This study focused on the development of EST-simple sequence repeats markers and the detection of their transferability and their utility for evaluating wheat leaf rust pathogen diversity. A total of 44,407 publicly available EST sequences derived from Puccinia triticina were computationally mined. Di-nucleotide repeat density covered the vast majority of assembled ESTs (45%). The tri-repeat motif (TCT) and penta-repeat motif (TTCTT) were the most repeated motif. A set of 103 Class I type sequences containing simple sequence repeats were further analyzed by BLASTX similarity. Nineteen primer pairs flanking regions of EST-SSRs were designed. Of the 19 primer pairs tested, 10 successfully amplified fragments. Their polymorphism was evaluated with 8 Puccinia triticina (Pt) single-uredinal isolates collected from the different regions of Turkey. These newly developed EST-SSR primer pairs can be implicated as stable markers for pathogen diversity analysis. It was also shown that some leaf rust EST-SSR markers were capable of cross-amplification in P. graminis f. sp. tritici.

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Lewers*, Kim S., Eric T. Stafne, John R. Clark, Courtney A. Weber, and Julie Graham. "Simple Sequence Repeat (SSR) Markers for Raspberry and Blackberry." HortScience 39, no. 4 (July 2004): 785D—785. http://dx.doi.org/10.21273/hortsci.39.4.785d.

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Some raspberry and blackberry breeders are interested in using molecular markers to assist with selection. Simple Sequence Repeat markers (SSRs) have many advantages, and SSRs developed from one species can sometimes be used with related species. Six SSRs derived from the weed R. alceifolius, and 74 SSRs from R. idaeus red raspberry `Glen Moy' were tested on R. idaeus red raspberry selection NY322 from Cornell Univ., R. occidentalis `Jewel' black raspberry, Rubus spp. blackberry `Arapaho', and blackberry selection APF-12 from the Univ. of Arkansas. The two raspberry genotypes are parents of an interspecific mapping population segregating for primocane fruiting and other traits. The two blackberry genotypes are parents of a population segregating for primocane fruiting and thornlessness. Of the six R. alceifolius SSRs, two amplified a product from all genotypes. Of the 74 red raspberry SSRs, 56 (74%) amplified a product from NY322, 39 (53%) amplified a product from `Jewel', and 24 (32%) amplified a product from blackberry. Of the 56 SSRs that amplified a product from NY322, 17 failed to amplify a product from `Jewel' and, therefore, detected polymorphisms between the parents of this mapping population. Twice as many detected polymorphisms of this type between blackberry and red raspberry, since 33 SSRs amplified a product from NY322, but neither of the blackberry genotypes. Differences in PCR product sizes from these genotypes reveal additional polymorphisms. Rubus is among the most diverse genera in the plant kingdom, so it is not surprising that only 19 of the 74 raspberry-derived SSRs amplified a product from all four of the genotypes tested. These SSRs will be useful in interspecific mapping and cultivar development.

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Melis, Roberta, Paige Bradley, Tami Elsner, Margaret Robertson, Elisabeth Lawrence, Steve Gerken, Hans Albertsen, and Ray White. "Polymorphic SSR (Simple-Sequence-Repeat) Markers for Chromosome 20." Genomics 16, no. 1 (April 1993): 56–62. http://dx.doi.org/10.1006/geno.1993.1140.

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Robinson, A. J., C. G. Love, J. Batley, G. Barker, and D. Edwards. "Simple sequence repeat marker loci discovery using SSR primer." Bioinformatics 20, no. 9 (February 12, 2004): 1475–76. http://dx.doi.org/10.1093/bioinformatics/bth104.

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Bornet, B., C. Muller, F. Paulus, and M. Branchard. "Highly informative nature of inter simple sequence repeat (ISSR) sequences amplified using tri- and tetra-nucleotide primers from DNA of cauliflower (Brassica oleracea var. botrytis L.)." Genome 45, no. 5 (October 1, 2002): 890–96. http://dx.doi.org/10.1139/g02-061.

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Inter simple sequence repeat (ISSR) sequences as molecular markers can lead to the detection of polymorphism and also be a new approach to the study of SSR distribution and frequency. In this study, ISSR amplification with nonanchored primer was performed in closely related cauliflower lines. Fourty-four different amplified fragments were sequenced. Sequences of PCR products are delimited by the expected motifs and number of repeats, which validates the ISSR nonanchored primer amplification technique. DNA and amino acids homology search between internal sequences and databases (i) show that the majority of the internal regions of ISSR had homologies with known sequences, mainly with genes coding for proteins implicated in DNA interaction or gene expression, which reflected the significance of amplified ISSR sequences and (ii) display long and numerous homologies with the Arabidopsis thaliana genome. ISSR amplifications revealed a high conservation of these sequences between Arabidopsis thaliana and Brassica oleracea var. botrytis. Thirty-four of the 44 ISSRs had one or several perfect or imperfect internal microsatellites. Such distribution indicates the presence in genomes of highly concentrated regions of SSR, or "SSR hot spots." Among the four nonanchored primers used in this study, trinucleotide repeats, and especially (CAA)5, were the most powerful primers for ISSR amplifications regarding the number of amplified bands, level of polymorphism, and their nature. Key words: inter simple sequence repeat (ISSR), nonanchored primer, DNA marker sequence, SSR, cluster of SSRs.

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Dissertations / Theses on the topic "Simple Sequence Repeat (SSR)"

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Jarvis, David. "Simple Sequence Repeat Development, Polymorphism and Genetic Mapping in Quinoa (Chenopodium quinoa Willd.)." Diss., CLICK HERE for online access, 2006. http://contentdm.lib.byu.edu/ETD/image/etd1475.pdf.

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Dernaika, Maher. "Molecular Characterization Of Strawberry By Applying Dna Fingerprinting Technique Using Simple Sequence Repeats (ssrs) Markers." Master's thesis, METU, 2009. http://etd.lib.metu.edu.tr/upload/2/12611258/index.pdf.

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In this study, strawberry fruit was taken as the studied model. An attempt was carried on trying to identify a unique DNA fingerprint in each of the selected different strawberry cultivars of Fragaria x ananassa Duch species available in Turkey. The basis of the study was to examine the fruit characteristics at the molecular level rather than at the morphological level. It is of great importance to differentiate and trace the origin of any variety by examining its DNA by using a very sophisticated molecular technique. In this case, DNA fingerprinting technique depending on the Simple Sequence Repeats (SSRs) markers which are also called Microsatellite markers were used. DNA fingerprinting technique reveals the specific DNA profile which is unique as a fingerprint for a fruit specimen and this DNA profile is the same and constant throughout different parts of the fruit as well as its developmental stages. In this thesis work, nine primers flanking the SSR markers already available in the online databases were designed hoping to detect SSRs that could differentiate among the five selected cultivars of strawberry.

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Pollock, Stephanie. "A study of genetic diversity and genome organization of Brassica napus using EST (expressed sequence tags) of Arabidopsis and SSR (simple sequence repeat) markers of B. napus /." Thesis, McGill University, 2001. http://digitool.Library.McGill.CA:80/R/?func=dbin-jump-full&object_id=33023.

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Arabidopsis expressed sequence tags (ESTs) and microsatellites of Brassica napus have been developed and used as PCR-based markers for both mapping and genetic diversity studies in B. napus . Out of 300 random Arabidopsis ESTs screened, 43 markers were mapped onto a genetic map of B. napus and then used in a diversity study involving 48 B. napus cultivars. A second set of EST markers were developed from chromosome 1 of Arabidopsis and used in genetic mapping studies of B. napus. From 192 primer pairs developed, 50 markers were added onto the B. napus reference map. Microsatellite markers were developed using a "GA" enriched genomic library from B. napus. From 152 designed primer pairs, 23 markers were added onto the B. napus reference map. Microsatellite markers were also used in genetic diversity studies of B. napus, where, from the 152 primer pairs, 40 revealed polymorphism between the 48 B. napus cultivars.

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Dizkirici, Ayten. "Genetic Diversity Of Scald (rhynchosporium Secalis) Disease Resistant And Sensitive Turkish Barley Seed Sources As Determined With Simple Sequence Repeats." Master's thesis, METU, 2006. http://etd.lib.metu.edu.tr/upload/12607498/index.pdf.

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Scald disease (Rhynchosporium secalis) is one of the major plant diseases causing considerable yield loss in barley (Hordeum vulgare) plantations in Turkey. To develop, scald resistant barley varieties, C.R.I.F.C. of Turkey has a large accumulated collection of barley seed sources in hand, but these samples are difficult to be followed and used in the breeding programs due to lack of genetic studies on them. Thus, the objective of this study was to characterize and fingerprint of eighty barley seed sources, and assess the magnitude and pattern of genetic diversity that could be used to have more efficient scald disease resistant breeding programs in the future. Forty scald disease resistant and 40 scald sensitive Turkish barley seed sources were screened using 6 simple sequence repeats (SSR) primers. Each of barley seed source were represented with four seeds, assuming they are genetically uniform since barley is a self-pollinated crop. Estimated genetic parameters indicated that scald disease resistant and sensitive barley seed sources still maintain large amount of genetic diversity. For example, expected heterozygosity was 0.62±
0.01 and 0.64±
0.01 for resistant and sensitive Turkish barley seed sources, respectively. Thirty-nine percent of total genetic variation was between populations for resistant and 46% for sensitive group, while 61% of total variation was within populations for resistant group and 54% for sensitive group. When overall Turkish barley seed sources were considered, genetic distances between scald sensitive seed source S18 and resistant R1 as well as between sensitive S28 and resistant R1 were large. Scald resistant and sensitive barley seed sources were generally located in different clusters in dendrogram. The presence of R25, R39 and S16 barley seed sources with high genetic diversity parameters among studied seed sources, suggests that this diversity could be important drive in future barley breeding program in Turkey. However, further study is needed to illustrate genetic divergence of Turkish barley seed sources with use of more molecular markers.

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Rae, Stephen J. "Isolation and characterisation of simple sequence repeat markers for Beta vulgaris." Thesis, University of Bristol, 2000. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.274669.

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Burman, Marc. "Phylogeographic structure in the CFR genus Pauridia revealed by inter-simple sequence repeat amplification." Bachelor's thesis, University of Cape Town, 2005. http://hdl.handle.net/11427/26185.

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The Cape Floristic Region, South Africa, has high numbers of rare and endemic plants. Many, including Pauridia Harv., are geophytes in the Hypoxidaceae. The two species of Pauridia differ in morphology and range, with P. minuta occupying a wide range across lowland CFR and P. longituba being restricted to granite outcrops on the West coast. Genetic structure correlated to geography has been described for the haploid chloroplast genome. Here the diploid nuclear genome is investigated using inter-simple sequence repeat amplification. Eleven populations were sampled from DNA collected for a previous study. Analysis of molecular variance was done. Ordination based on similarity and covariance was done to detect structure. Most of the variance was found to be within populations (65.54%) and between populations within groups (35.69%). Some variance (10.10%) was found between P. minuta geographic groups. Principal Component Analysis revealed a little structure, grouping some similar haplotypes together. Cluster analysis placed P. longituba within P. minuta, reflecting the haplotypic structure. Differences in structure revealed between the chloroplast and nuclear genome may be explained by differences in gene flow resulting from the different modes of inheritance - chloroplast via seed and nuclear via pollen and seed. Further analysis of genetic distance correlations between the chloroplast and nuclear data would provide a useful quantitative measure of difference in structure.

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MOTA, Monalize Salete. "Caracterização molecular de alelos-S e de locos microssatélites em Prunus salicina (Lindl.)." Universidade Federal de Pelotas, 2008. http://repositorio.ufpel.edu.br/handle/ri/2028.

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Made available in DSpace on 2014-08-20T13:59:10Z (GMT). No. of bitstreams: 1 dissertacao_monalize_mota.pdf: 604056 bytes, checksum: 57eae937e8a32e621bfa9faf35bcd6fa (MD5) Previous issue date: 2008-07-31
The production of plum is an important commodity around the world. In Brazil, the state of Rio Grande do Sul is the major producer. However, despite the great potential for cultivation, some factors are limiting for increasing the production, such as: a) climate variability; b) use of inadequate stocks; c) pollination of most cultivar is self-incompatible d) doubtful genetic history of the plant material. Considering these problems, the aim of this work was to identify allele-S related to gametophytic self- incompatibility in Prunus salicina (Lindl.) and to perform the molecular characterization of cultivars by means of microsatellites locus. For these purposes eleven cultivars of Japanese plum [Santa Rosa, Santa Rita, Reubennel, Pluma 7, América, Rosa Mineira, Amarelinha, The First, Gulfblaze (Clone São Paulo), Gulfblaze (Clone Guaíba) e Harry Pickstone] were analysed by Polymerase Chain Reaction (PCR) using three pairs of primers specific for amplifying the alleles-S and primers for five microsatellite locus. The experiments were performed in the Laboratório de Cultura de Tecidos de Plantas Caracterização Molecular, of the Departamento de Botânica da Universidade Federal de Pelotas. In the amplification of alleles-S was observed that the reaction mix for PCR, the PCR conditions, and primers combination, allowed an effective characterization of alleles-S in the cultivars of P. salicina and the identification of pollinators more compatible to commercial cultivars. Sequencing analysis of some amplified alleles-S revealed high similarity to sequences of nucleotides already identified in other studies with Prunus spp. In the analysis of five microsatellite locus thirty polymorphisms were obtained allowing a clear identification of Japanese plum genotypes, elucidating the homonymy between the cultivars Gulfblaze (Clone São Paulo) and Gulfblaze (Clone Guaíba). However, the polymorphisms were not sufficient for obtaining a reasonable estimation of the genetic variability and grouping analysis of the Japanese plums evaluated.
A cultura de ameixeira tem papel de destaque na fruticultura mundial. No Brasil, o Estado do Rio Grande do Sul se destaca como maior produtor. Porém, mesmo apresentando elevado potencial de cultivo, alguns fatores têm limitado o aumento da produção, entre eles: a) a variabilidade de clima; b) o uso de porta- enxertos inadequados; c) a incapacidade de autopolinização da maioria das cultivares d) e a idoneidade genética do material vegetal. Diante disso, o objetivo deste trabalho foi identificar alelos-S relacionados à auto-incompatibilidade gametofítica em Prunus salicina (Lindl.) e caracterizar molecularmente as cultivares por meio de locos microssatélites. Para tal fim foram analisadas 11 cultivares de ameixeira japonesa [Santa Rosa, Santa Rita, Reubennel, Pluma 7, América, Rosa Mineira, Amarelinha, The First, Gulfblaze (Clone São Paulo), Gulfblaze (Clone Guaíba) e Harry Pickstone], por meio de Reação em Cadeia da Polimerase (PCR) com três pares de primers específicos para amplificação de alelos-S e primers para cinco locos de microssatélites. Os experimentos foram desenvolvidos no Laboratório de Cultura de Tecidos de Plantas Caracterização Molecular, do Departamento de Botânica da Universidade Federal de Pelotas. Na amplificação de alelos-S, constatou-se que as concentrações e condições de PCR utilizadas, bem como às combinações de primers, permitiram a efetiva caracterização de alelos-S nas cultivares de P. salicina estudadas, bem como, a escolha das polinizadoras mais compatíveis com as cultivares produtoras. O seqüenciamento de alguns dos alelos-S amplificados revelou elevada similaridade com seqüências de nucleotídeos já identificados em outros trabalhos com Prunus spp.. Na análise de cinco locos de microssatélites obteve-se um total de 30 polimorfismos possibilitando uma clara identificação dos genótipos de ameixeira japonesa, esclarecendo caso de homonímia entre as cultivares Gulfblaze (Clone São Paulo) e Gulfblaze (Clone Guaíba), no entanto, os polimorfismos não foram suficientes para obter uma boa estimativa da variabilidade genética e análise de agrupamento dos genótipos de ameixeira japonesa avaliados.

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Smit, Rynhard. "Evaluation of Random Amplified Polymorphic DNA and Simple Sequence Repeat markers in Moringa oleifera (Lam.) to establish population diversity." Diss., University of Pretoria, 2013. http://hdl.handle.net/2263/43245.

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Moringa oleifera is potentially an economically important tree species. It has gained interest globally for its multipurpose uses, in particular as a source of nutrition and oil, as well as for its various medicinal properties. Moringa is native to India, Malaysia and the Middle East, but have been introduced to many countries throughout Africa. There is however limited knowledge regarding the genetic variation of both native and introduced populations of Moringa, although phenotypic observations suggest the presence of significant genetic diversity. To do this we used Moringa collections from different locations including India, South Africa and Hawaii, with different cultivars present in the foreign samples. Molecular markers such as Random Amplified Polymorphic DNA (RAPD) and Simple Sequence Repeats (SSR) were evaluated for their efficiency as a marker system in Moringa, based on their success in other tropical tree population studies. The comparative analysis between the two revealed that both marker systems identified similar heterogeneity of 0.438 (RAPD) and 0.481 (SSR). However, the microsatellite marker was more effective for assessing genetic diversity, with a marker index (MI) value of 5.77 compared to 2.96 (RAPD), within our data set. Three major groups among the 71 accessions were clustered together in the dendogram and Principle Co-ordinate Analysis (PCoA), based on the genetic similarity matrices generated by both markers. Both cultivars were grouped together irrespective of origins, suggesting a relationship of genetic identity rather than geographical origins. The markers investigated in this study were found to be effective for determining genetic diversity, verifying higher genetic variation among the S.A. accessions of Moringas and distinguishing them from the cultivars investigated. This information could possibly be exploited for cultivar development in tree improvement programmes.
Dissertation (MSc)--University of Pretoria, 2013.
lk2014
Genetics
MSc
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Alamri, Sarah. "COMPARATIVE ANALYSIS OF SOYBEAN (GLYCINE MAX) ACCESSIONS USING INTER SIMPLE SEQUENCE REPEAT (ISSR) AND RANDOM AMPLIFIED POLYMORPHIC DNA (RAPD) MARKERS." Thesis, Laurentian University of Sudbury, 2014. https://zone.biblio.laurentian.ca/dspace/handle/10219/2201.

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Soybean (Glycine max) is an important crop in the world in terms of total production and usage. It is also among the least diverse species. The main objectives of the present study were 1) to determine differences between ISSR and RAPD marker systems in detecting genetic variation in soybeans and 2) to identify and characterize accession- diagnostic molecular markers in G. max accessions. Genomic DNAs from 108 G. max accessions from 11 different gene pools were analyzed using several ISSR and RAPD primers. The levels of polymorphic loci detected with the two marker systems were in general moderate and similar.. Overall, 82% of genetic distance values were above 0.40 based on ISSR analysis. However, RAPD data revealed that the accessions from different countries are closely related with 64% genetic distance values below 0.40. The dendrograms constructed with ISSR data revealed that the South Korean accessions formed an out-group while the RAPD analysis showed that accessions from Sweden were separate from the other 10 gene pools. One variety-diagnostic marker generated with ISSR 5 primer was identified in the accession Kao Chien Tao from China. This marker was cloned, and sequenced. Although RAPD and ISSR marker systems detected similar levels of genetic variability, they target different regions of the soybean genome, resulting in different clustering of the 11 gene pools indicating different genetic relatedness among them. This finding demonstrates the usefulness of both marker systems in assessing diversity and relatedness among Glycine max gene pools.

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Bornet, Benjamin. "Détermination de la nature moléculaire de marqueurs inter-microsatellitaires ou ISSR (Inter Simple Sequence Repeat) et utilisation pour l'identification variétale et l'analyse des relations phénétiques." Brest, 2002. http://www.theses.fr/2002BRES2003.

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Chez les eucaryotes, il existe un grand nombre de séquences répétées à l'origine de fort polymorphisme et parmi lesquelles les microsatellites ou SSR (Simple Sequence Repeat) sont majoritaires. Nous avons utilisé la présence de ces SSR, pour l'analyse du polymorphisme, par l'amplification de régions inter-microsatellitaires ou Inter Simple Sequence Repeat (ISSR). Ces travaux ont porté sur l'analyse fondamentale de ces régions génomiques ainsi que sur leur utilisation pour des études de la diversité génétique. Ces travaux ont montré la forte reproductibilité de l'amplification de marqueurs ISSR ainsi que la rapidité et l'efficacité de notre approche d'analyse du polymorphisme. Cette démarche consiste à n'utiliser qu'un petit nombre d'amorce, sans ou avec ancrage, mais dans des conditions d'amplifications optimales et spécifiques. Suite a ces tests, l'analyse de séquences nous a permis tout d'abord de valider la technique d'amplification puis de connaître la nature de 44 de ces régions d'ADN amplifiées par des amorces CAA, CAG, GACA et GATA. Il s'avère que la majorité des fragments (66 % sans considérer les microsatellites des extrémités) ont des homologies significatives avec des gènes caractérisés chez différentes espèces et codant principalement pour des protéines de liaison avec l'ADN. Les séquences inter-microsatellitaires ne seraient donc pas des régions anodines des génomes. L'analyse de la séquence de ces fragments a aussi révélé la présence, dans le génome du chou-fleur, de nombreuses zones très riches en SSR (ou " hot spot ") et s'est avérée être un très bon indicateur de la conservation des génomes entre les Brassica (cas du chou-fleur) et Arabidopsis thaliana. L'amplification de marqueurs ISSR a aussi été appliquée pour l'identification rapide, efficace et pertinente de différentes variétés ainsi que pour l'étude des relations intra et inter espèces, principalement chez des crucifères (Brassica et Arabidopsis thaliana) ou chez la pomme de terre (Solanum tuberosum).

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Book chapters on the topic "Simple Sequence Repeat (SSR)"

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Zhao, Yongli, Manjunath Keremane, Channapatna S. Prakash, and Guohao He. "Characterization and Amplification of Gene-Based Simple Sequence Repeat (SSR) Markers in Date Palm." In Methods in Molecular Biology, 259–71. New York, NY: Springer New York, 2017. http://dx.doi.org/10.1007/978-1-4939-7159-6_21.

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Al-Faifi, Sulieman A., Hussein M. Migdadi, Salem S. Algamdi, Mohammad Altaf Khan, Rashid S. Al-Obeed, Megahed H. Ammar, and Jerenj Jakse. "Development of Genomic Simple Sequence Repeats (SSR) by Enrichment Libraries in Date Palm." In Methods in Molecular Biology, 315–37. New York, NY: Springer New York, 2017. http://dx.doi.org/10.1007/978-1-4939-7159-6_24.

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Onyśk, Agnieszka, and Maja Boczkowska. "M13-Tailed Simple Sequence Repeat (SSR) Markers in Studies of Genetic Diversity and Population Structure of Common Oat Germplasm." In Methods in Molecular Biology, 159–68. New York, NY: Springer New York, 2017. http://dx.doi.org/10.1007/978-1-4939-6682-0_12.

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Tsukazaki, Hikaru. "Simple Sequence Repeat." In Compendium of Plant Genomes, 113–27. Cham: Springer International Publishing, 2018. http://dx.doi.org/10.1007/978-3-319-95825-5_8.

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Batley, Jacqueline, Erica Jewell, and David Edwards. "Automated Discovery of Single Nucleotide Polymorphism and Simple Sequence Repeat Molecular Genetic Markers." In Plant Bioinformatics, 473–94. Totowa, NJ: Humana Press, 2007. http://dx.doi.org/10.1007/978-1-59745-535-0_23.

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Usha, R., and Ch Indhravathi. "Genetic Diversity of Rice Cultivars (Oryza Sativa L.) Assessed Through Simple Sequence Repeat Marker." In Lecture Notes in Networks and Systems, 381–94. Singapore: Springer Singapore, 2021. http://dx.doi.org/10.1007/978-981-16-1941-0_37.

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Ayesh, Basim M. "Genotyping and Molecular Identification of Date Palm Cultivars Using Inter-Simple Sequence Repeat (ISSR) Markers." In Methods in Molecular Biology, 173–83. New York, NY: Springer New York, 2017. http://dx.doi.org/10.1007/978-1-4939-7159-6_15.

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Mahatma, Mahesh K., Vishal S. Srivashtav, and Sanjay Jha. "Genetic Diversity Analysis of Date Palm Using Random Amplified Polymorphic DNA (RAPD) and Inter-Simple Sequence Repeat (ISSR)." In Methods in Molecular Biology, 105–12. New York, NY: Springer New York, 2017. http://dx.doi.org/10.1007/978-1-4939-7159-6_10.

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Haider, Nadia. "Determining Phylogenetic Relationships Among Date Palm Cultivars Using Random Amplified Polymorphic DNA (RAPD) and Inter-Simple Sequence Repeat (ISSR) Markers." In Methods in Molecular Biology, 153–72. New York, NY: Springer New York, 2017. http://dx.doi.org/10.1007/978-1-4939-7159-6_14.

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"Simple Sequence Repeats (SSR)." In Encyclopedia of Genetics, Genomics, Proteomics and Informatics, 1820. Dordrecht: Springer Netherlands, 2008. http://dx.doi.org/10.1007/978-1-4020-6754-9_15649.

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Conference papers on the topic "Simple Sequence Repeat (SSR)"

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Ahmed, Talaat, and Sara Al-hadidy. "Analysis Of Date Palm Germplasm Phylogenetic Relationship Using Simple Sequence Repeat (ssr) Markers." In Qatar Foundation Annual Research Conference Proceedings. Hamad bin Khalifa University Press (HBKU Press), 2014. http://dx.doi.org/10.5339/qfarc.2014.eepp0642.

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Pai, Tun-Wen, Yang-Chun Chang, Cing-Han Yang, Ronshan Chen, and Rong-Hwa Chen. "Functional Simple Sequence Repeat (SSR) Biomarkers for Specific Gene Groups of Oreochromis Niloticus." In the 2018 7th International Conference. New York, New York, USA: ACM Press, 2018. http://dx.doi.org/10.1145/3239264.3239278.

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Barus, Hafizha, Eva Bayu, and Diana Hanafiah. "Identification Genetic of Soybean Mutant (Glycine max L. Merril) Based on Fatty Acid Characters Using Simple Sequence Repeat (SSR) Markers." In The 3rd International Conference Community Research and Service Engagements, IC2RSE 2019, 4th December 2019, North Sumatra, Indonesia. EAI, 2020. http://dx.doi.org/10.4108/eai.4-12-2019.2293861.

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Zhang, Dan, Fei Shen, Jingying Liu, and Jerzy Falandysz. "Studies on germplasm resources ofAuricularia polytrichaby inter-simple sequence repeat (ISSR)." In International Conference on Medical Engineering and Bioinformatics. Southampton, UK: WIT Press, 2014. http://dx.doi.org/10.2495/meb140011.

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Azhari, Hanif, Azhar Mohamad, and Roohaida Othman. "Molecular identification of Aquilaria spp. by using inter-simple sequence repeat (ISSR)." In THE 2015 UKM FST POSTGRADUATE COLLOQUIUM: Proceedings of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology 2015 Postgraduate Colloquium. AIP Publishing LLC, 2015. http://dx.doi.org/10.1063/1.4931251.

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Chen, Chien-Ming, Chia-Sheng Chuang, Zhen-Li Huang, and Tun-Wen Pai. "Discover significant associations of orthologous simple sequence repeat patterns with gene ontology terms." In 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshop, BIBMW. IEEE, 2009. http://dx.doi.org/10.1109/bibmw.2009.5332096.

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Liu Shanshan and Yuan Lin. "Genetic diversity of Fusarium oxysporum f. sp. lini by inter simple sequence repeat (ISSR)." In 2011 International Symposium on Information Technology in Medicine and Education (ITME 2011). IEEE, 2011. http://dx.doi.org/10.1109/itime.2011.6132089.

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Liu, Jun, and Dong Li. "Research on Genetic Diversity of Pepper Germplasm Resources by Inter-simple Sequence Repeat Molecular Markers." In 3rd International Conference on Material, Mechanical and Manufacturing Engineering (IC3ME 2015). Paris, France: Atlantis Press, 2015. http://dx.doi.org/10.2991/ic3me-15.2015.85.

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Daryono, Budi Setiadi, Fadilla Husnun, and Dian Sartika. "Genetic variation analysis of melon (Cucumis melo L. ‘Tacapa Gold’) using inter-simple sequence repeat." In THE 6TH INTERNATIONAL CONFERENCE ON BIOLOGICAL SCIENCE ICBS 2019: “Biodiversity as a Cornerstone for Embracing Future Humanity”. AIP Publishing, 2020. http://dx.doi.org/10.1063/5.0017611.

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Wang, Yan, Wen He, Jing Zhang, Tao Chen, Qing Chen, Hao-Ru Tang, Lin Liu, and Xiao-Rong Wang. "Genetic Relationship between Rubus Parvifolius and R. Coreanus (Rubus, Rosaceae) based on Simple Sequence Repeat Markers." In 2017 2nd International Conference on Biological Sciences and Technology (BST 2017). Paris, France: Atlantis Press, 2018. http://dx.doi.org/10.2991/bst-17.2018.16.

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