Simple Sequence Repeats (SSRs) in Watermelon (Citrullus lanatus L.)

Simple sequence repeats (SSRs) were isolated from a size-fractionated genomic DNA library of watermelon (Citrullus lanatus L. cv. New Hampshire Midget). Screening of the library with five oligonucleotide probes, including (GT)11, (AT)11, (CT)11, (GC)11, and (TAA)8, detected the occurrence of 96 positive colonies among ≈8000 recombinants. Automated DNA sequencing revealed the presence of SSRs. PCR primer pairs homologous to the regions flanking the SSR loci were synthesized commercially and used to screen 56 watermelon genotypes for the occurrence of SSR polymorphisms. Amplification products were separated using nondenaturing PAGE. Eighty percent of the primer pairs produced amplification products of the expected size and detected polymorphisms among the genotypes examined. The use of SSRs for watermelon germplasm characterization is discussed.

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Simple Sequence Repeats (SSRs) in Sweetpotato [Ipomoea batatas (L.) Lam.]

HortScience ◽

10.21273/hortsci.30.4.841e ◽

1995 ◽

Vol 30 (4) ◽

pp. 841E-841

Author(s):

R.L. Jarret ◽

N. Bowen ◽

S. Kresovich ◽

Z. Liu

Keyword(s):

Simple Sequence Repeats ◽

Genomic Dna ◽

Ipomoea Batatas ◽

Oligonucleotide Probes ◽

Germplasm Characterization ◽

Amplification Product ◽

Dna Library ◽

Automated Dna Sequencing ◽

Genomic Dna Library ◽

Simple Sequence

Simple sequence repeats (SSRs) were isolated from a size-fractionated genomic DNA library of sweetpotato [Ipomoea batatas (L.) Lam.]. Screening of the library with five oligonucleotide probes, including; (GT)11, (AT)11, (CT)11, (GC)11, and (TAA)8, detected the occurrence of 142 positive colonies among ≈12,000 recombinants. Automated DNA sequencing revealed the presence of simple, compound, perfect, and imperfect SSRs. Five homologous PCR primer pairs were synthesized commercially and used to screen 30 sweetpotato clones for the occurrence of SSR polymorphisms. All primer pairs produced an amplification product of the expected size and detected polymorphisms among the genotypes examined. The potential for the use of SSRs as genetic markers for sweetpotato germplasm characterization is discussed.

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Identification of Simple-sequence Repeats in Malus (Apple)

HortScience ◽

10.21273/hortsci.30.4.855d ◽

1995 ◽

Vol 30 (4) ◽

pp. 855D-855 ◽

Cited By ~ 2

Author(s):

Amy K. Szewc-McFadden ◽

Sharon Bliek ◽

Christopher G. Alpha ◽

Warren F. Lamboy ◽

James R. McFerson

Keyword(s):

Simple Sequence Repeats ◽

Fragment Length Polymorphism ◽

Random Amplified Polymorphic Dna ◽

Germplasm Characterization ◽

The Core ◽

Marker Data ◽

Core Subset ◽

Germplasm Collections ◽

Ssr Loci ◽

Simple Sequence

Simple-sequence repeats (SSRs) are efficient and informative DNA markers with great potential for germplasm characterization. When used to characterize large arrays of accessions, such as the core subset of the USDA/ARS Malus collection, SSRs may be more effective than other approaches, such as restriction fragment length polymorphism (RFLP) and random amplified polymorphic DNA (RAPD). For example, SSRs can be PCR-amplified and fluorescence-based detected; they also appear to be abundantly disbursed throughout plant genomes and yield abundant polymorphisms in most taxa studied. We are conducting an extensive screening of a size-fractionated library of Malus ×domestica cv. Golden Delicious to identify and characterize selected SSR loci. We are applying genetic information revealed by SSR loci in combination with passport and horticultural data to better comprehend genetic identity and relatedness in Malus germplasm collections and help develop the Malus core subset. Ultimately, application of molecular marker data will permit improved conservation and use of genetic resources.

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Simple sequence repeats in watermelon (Citrullus lanatus (Thunb.) Matsum. &Nakai)

Genome ◽

10.1139/g97-058 ◽

1997 ◽

Vol 40 (4) ◽

pp. 433-441 ◽

Cited By ~ 60

Author(s):

R. L. Jarret ◽

L. C. Merrick ◽

T. Holms ◽

J. Evans ◽

M. K. Aradhya

Keyword(s):

Genetic Diversity ◽

Simple Sequence Repeats ◽

Genetic Relatedness ◽

Genomic Library ◽

Citrullus Lanatus ◽

Dinucleotide Repeats ◽

Length Polymorphisms ◽

Ssr Loci ◽

Diversity Studies ◽

Simple Sequence

Simple sequence repeat length polymorphisms were utilized to examine genetic relatedness among accessions of watermelon (Citrullus lanatus (Thunb.) Matsum. &Nakai). A size-fractionated TaqI genomic library was screened for the occurrence of dimer and trimer simple sequence repeats (SSRs). A total of 96 (0.53%) SSR-bearing clones were identified and the inserts from 50 of these were sequenced. The dinucleotide repeats (CT)n and (GA)n accounted for 82% of the SSRs sequenced. PCR primer pairs flanking seven SSR loci were used to amplify SSRs from 32 morphologically variable watermelon genotypes from Africa, Europe, Asia, and Mexico and a single accession of Citrullus colocynthis from Chad. Cluster analysis of SSR length polymorphisms delineated 4 groups at the 25% level of genetic similarity. The largest group contained C. lanatus var. lanatus accessions. The second largest group contained only wild and cultivated "citron"-type or C. lanatus var. citroides accessions. The third group contained an accession tentatively identified as C. lanatus var. lanatus but which perhaps is a hybrid between C. lanatus var. lanatus and C. lanatus var. citroides. The fourth group consisted of a single accession identified as C. colocynthis. "Egusi"-type watermelons from Nigeria grouped with C. lanatus var. lanatus. The use of SSRs for watermelon germplasm characterization and genetic diversity studies is discussed.Key words: Citrullus, watermelon, simple sequence repeats, genetic diversity.

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Screening for the Interacting Partners of the Proteins MamK & MamJ by Two-Hybrid Genomic DNA Library of Magnetospirillum magneticum AMB-1

Current Microbiology ◽

10.1007/s00284-012-0099-2 ◽

2012 ◽

Vol 64 (6) ◽

pp. 515-523 ◽

Cited By ~ 12

Author(s):

Weidong Pan ◽

Chunlan Xie ◽

Jing Lv

Keyword(s):

Genomic Dna ◽

Dna Library ◽

Genomic Dna Library ◽

Magnetospirillum Magneticum ◽

Two Hybrid

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Restriction fragment length polymorphism (RFLP) analysis in wheat. I. Genomic DNA library construction and RFLP analysis in common wheat.

The Japanese Journal of Genetics ◽

10.1266/jjg.65.367 ◽

1990 ◽

Vol 65 (5) ◽

pp. 367-380 ◽

Cited By ~ 60

Author(s):

Yao Guang LIU ◽

Naoki MORI ◽

Koichiro TSUNEWAKI

Keyword(s):

Restriction Fragment Length Polymorphism ◽

Common Wheat ◽

Length Polymorphism ◽

Fragment Length ◽

Genomic Dna ◽

Fragment Length Polymorphism ◽

Rflp Analysis ◽

Dna Library ◽

Genomic Dna Library ◽

Restriction Fragment Length

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Lemons: Diversity and Relationships with Selected Citrus Genotypes as Measured with Nuclear Genome Markers

Journal of the American Society for Horticultural Science ◽

10.21273/jashs.126.3.309 ◽

2001 ◽

Vol 126 (3) ◽

pp. 309-317 ◽

Cited By ~ 59

Author(s):

O. Gulsen ◽

M.L. Roose

Keyword(s):

Simple Sequence Repeats ◽

Phylogenetic Trees ◽

Nuclear Genome ◽

Group Method ◽

Arithmetic Average ◽

Pair Group ◽

Inter Simple Sequence Repeats ◽

Ssr Loci ◽

High Level ◽

Simple Sequence

Inter-simple sequence repeats (ISSR), simple sequence repeats (SSR) and isozymes were used to measure genetic diversity and phylogenetic relationships among 95 Citrus L. accessions including 57 lemons [C. limon (L.) Burm. f.], related taxa, and three proposed ancestral species, C. maxima (Burm.) Merrill (pummelo), C. medica L. (citron), and C. reticulata Blanco (mandarin). The ancestry of lemons and several other suspected hybrids was also studied. Five isozyme and five SSR loci revealed relatively little variation among most lemons, but a high level of variation among the relatively distant Citrus taxa. Eight ISSR primers amplified a total of 103 polymorphic fragments among the 83 accessions. Similarity matrices were calculated and phylogenetic trees derived using unweighted pair-group method, arithmetic average cluster analysis. All lemons, rough lemons, and sweet lemons, as well as some other suspected hybrids, clustered with citrons. Most lemons (68%) had nearly identical marker phenotypes, suggesting they originated from a single clonal parent via a series of mutations. Citrons contributed the largest part of the lemon genome and a major part of the genomes of rough lemons, sweet lemons, and sweet limes. Bands that characterize C. reticulata and C. maxima were detected in lemons, suggesting that these taxa also contributed to the pedigree of lemon.

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Eimeria species: studies using rRNA and rDNA probes

Parasitology ◽

10.1017/s0031182000079671 ◽

1990 ◽

Vol 101 (1) ◽

pp. 1-6 ◽

Cited By ~ 12

Author(s):

J. Ellis ◽

J. Bumstead

Keyword(s):

Genomic Dna ◽

Southern Hybridization ◽

Eimeria Species ◽

Small Subunit ◽

Rrna Genes ◽

Rdna Probe ◽

Dna Library ◽

Rdna Sequences ◽

Genomic Dna Library

SUMMARYrRNA and a heterologous cloned rDNA probe have been used to detect the rRNA genes of Eimeria species which infe the chicken, and has allowed the isolation and preliminary characterization of cloned rDNA sequences from a genomic DNA library of Eimeria tenella. It is demonstrated that rRNA and rDNA probes can be used to identify individual Eimeria species by the restriction fragment patterns detected after Southern hybridization. In addition, studies have shown that the large and small subunit rRNAs are expressed throughout sporulation.

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