Genetic diversity among a complex of cereal cyst nematodes inferred from RFLP analysis of the ribosomal internal transcribed spacer region

Genome ◽  
1997 ◽  
Vol 40 (4) ◽  
pp. 479-486 ◽  
Author(s):  
S. Bekal ◽  
J. P. Gauthier ◽  
R. Rivoal
Keyword(s):  
Phylogenetic Relationships ◽  
Internal Transcribed Spacer ◽  
Rflp Analysis ◽  
Restriction Pattern ◽  
Nuclear Ribosomal Dna ◽  
Heterodera Avenae ◽  
Cyst Nematodes ◽  
Internal Transcribed Spacer Region ◽  
5.8S Rdna ◽  
Pcr Rflp

This study examined the restriction polymorphism (RFLP) of the nuclear ribosomal DNA in Heterodera avenae, H. filipjevi, H. mani, H. latipons, and the taxonomically unclear Gotland strain in order to establish a molecular characterization and phylogenetic relationships in the complex of cereal cyst nematodes (CCN). The internal transcribed spacer (ITS) and 5.8S rDNA were amplified by PCR from a single female or a cyst of 27 different geographic isolates of the CCN complex and one population of H. schachtii, used as outgroup. The amplified product was 1.2 kb long and 14 of 15 enzymes produced restriction fragments for each isolate. Relationships between populations were determined from UPGMA analysis based on distance values calculated from RFLP data. Digestions with TaqI clearly differentiated H. avenae, H. latipons, and a group composed of H. filipjevi and the Gotland strain. Six endonucleases (HaeIII, HinfI, ItaI, PstI, TaqI, and Tru9I) produced the same restriction pattern with H. filipjevi and the Gotland strain, and both were clearly separated from H. avenae with PstI. Restriction sites have revealed a mixture of the species H. latipons and H. avenae, and possible infraspecific variation in H. avenae. The inferred phylogenetic relationships of species in the CCN complex are in agreement with their morphological characterization.Key words: cereal cyst nematodes, Heterodera avenae, PCR, RFLP, ribosomal diversity.

scholarly journals Phylogenetic Relationships of Local Durian Species based on Morphological Characteristics and PCR-RFLP Analysis of the Ribosomal Internal Transcribed Spacer (ITS) DNA

2016 ◽  
Vol 8 (3) ◽  
pp. 362
Author(s):  
Fidia Fibriana ◽  
Lutfia Nur Hadiyanti
Keyword(s):  
Phylogenetic Relationships ◽  
Internal Transcribed Spacer ◽  
Morphological Characteristics ◽  
Biology Education ◽  
Rflp Analysis ◽  
Restriction Pattern ◽  
Internal Transcribed Spacers ◽  
Central Java ◽  
Pcr Rflp ◽  
Pcr Products

<p>In this study, twenty local durian accessions obtained from Central Java in situ collection were characterized using the morphological characteristics and the restriction patterns which generated from the region spanning the internal transcribed spacers ITS LEU and ITS 4. Morphological characteristics of durian leaf, stem, tree, and fruit showed variations for the different accessions, whereas polymerase chain reaction (PCR) products of ribosomal DNA region showed a low length of variation. The size of the PCR products and the restriction analyses with the restriction endonucleases Bsp1431yielded a restriction pattern for each accessions. The results of this study can be utilized by local durian farmers as a preliminary reference for durian propagation. The data obtained need to be supported by further research using the other molecular markers to obtain more accurate data. The clear identity of durian species can help the management of propagation systems by farmers to get superior local durian.</p><p><strong>How to Cite</strong></p><p>Fibriana, F., &amp; Hadiyanti, L. N. (2016). Phylogenetic Relationships of Local Durian Species based on Morphological Characteristics and PCR-RFLP Analysis of the Ribosomal Internal Transcribed Spacer (ITS) DNA. <em>Biosaintifika: Journal of Biology &amp; Biology Education</em>, 8(3), 362-370. </p>

scholarly journals Genetic Variation Among Isolates of the Web Blight Pathogen of Common Bean Based on PCR-RFLP of the ITS-rDNA Region

Plant Disease ◽  
2003 ◽  
Vol 87 (7) ◽  
pp. 766-771 ◽  
Author(s):  
G. Godoy-Lutz ◽  
J. R. Steadman ◽  
B. Higgins ◽  
K. Powers
Keyword(s):  
Common Bean ◽  
Management Practices ◽  
Rflp Analysis ◽  
Enzymatic Digestion ◽  
Nuclear Ribosomal Dna ◽  
5.8S Rdna ◽  
Dna Repeat ◽  
Pcr Rflp ◽  
Polymerase Chain ◽  
Web Blight

Variability of 45 isolates of Rhizoctonia solani (teleomorph Thanatephorus cucumeris) causing web blight (WB) of common bean, Phaseolus vulgaris, was examined by polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis of the internal transcribed spacer regions (ITS1 and ITS2) and the 5.8S subunit (5.8S) of the nuclear ribosomal DNA repeat (ITS-5.8S-rDNA). Isolates were collected from diseased bean leaves from Argentina, Costa Rica, Cuba, Dominican Republic, Honduras, Panama, and Puerto Rico. These WB isolates belong to AG-1 and AG-2 based on anastomosis reaction. Isolates of AG-1 that cause WB were separated into three distinct groups of RFLP patterns from enzymatic digestion of a 740-bp PCR fragment. Microsclerotia-producing isolates (<1 mm) were differentiated from macrosclerotia-producing isolates (5 to 20 mm) based on PCR-RFLP patterns even though they are placed in the same AG1-1B subgroup by anastomosis reaction. WB isolates of AG-2 were separated into two distinct PCR-RFLP groups as previously reported. AG-1 macrosclerotial-producing isolates were the most virulent, whereas isolates of AG-2 were the least virulent. Genetic variability of the WB pathogen may have influenced the failure or success of management practices implemented in the past in Latin America.

scholarly journals Genetic Sequence Variation in the ITS Region of Nine Rubus Genotypes

HortScience ◽  
2004 ◽  
Vol 39 (4) ◽  
pp. 754A-754 ◽  
Author(s):  
Eric Stafne* ◽  
John Clark ◽  
Allen Szalanski
Keyword(s):  
Genetic Variation ◽  
Rflp Analysis ◽  
Small Variation ◽  
Its Region ◽  
Genetic Distances ◽  
Nuclear Ribosomal Dna ◽  
Internal Transcribed Spacer Region ◽  
Pcr Rflp ◽  
Restriction Sites ◽  
Polymerase Chain

In this study, the nuclear ribosomal DNA internal transcribed spacer region (ITS) of six Rubus cultivars were sequenced, then compared with sequences of three Rubus species in Genbank. DNA sequencing revealed little genetic variation among blackberry cultivars, but ably revealed distinctions between blackberry and red raspberry genotypes. Analysis by maximum-parsimony and pairwise genetic distances confirmed the small variation among blackberry cultivars. The resulting sequences were analyzed for useful restriction sites and polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis was conducted on a total of six cultivars to establish genetic variation. Digests were difficult to interpret due to heterogeneity at restriction sites.

Phylogenetic Relationships of Wildlife Order Carnivora in Thailand Inferred from the Internal Transcribed Spacer Region

2008 ◽  
Vol 8 (2) ◽  
pp. 278-287 ◽  
Author(s):  
Arunrat Chaveerach ◽  
Nattapong Srisamoot ◽  
Suporn Nuchadomro ◽  
Nison Sattayasai ◽  
Prapansak Chaveerach ◽  
...  
Keyword(s):  
Phylogenetic Relationships ◽  
Internal Transcribed Spacer ◽  
Internal Transcribed Spacer Region

Phylogenetic relationships of the monogenomic species of the wheat tribe, Triticeae (Poaceae), inferred from nuclear rDNA (internal transcribed spacer) sequences

Genome ◽  
1995 ◽  
Vol 38 (2) ◽  
pp. 211-223 ◽  
Author(s):  
C. Hsiao ◽  
N. J. Chatterton ◽  
K. H. Asay ◽  
K. B. Jensen
Keyword(s):  
Phylogenetic Relationships ◽  
Internal Transcribed Spacer ◽  
Phylogenetic Trees ◽  
Parallel Evolution ◽  
Diploid Species ◽  
Its Region ◽  
Molecular Data ◽  
Nuclear Ribosomal Dna ◽  
The Arctic ◽  
Cytogenetic Evidence

Phylogenetic relationships of 30 diploid species of Triticeae (Poaceae) representing 19 genomes were estimated from the sequences of the internal transcribed spacer (ITS) region of nuclear ribosomal DNA. The ITS sequence phylogeny indicated that: (i) each genome group of species is monophyletic, concordant with cytogenetic evidence; (ii) Hordeum (I) and Critesion (H) are basal; (iii) Australopyrum (W) is closely related to Agropyron (P); (iv) Peridictyon (G), Heteranthelium (Q), and Dasypyrum (V) are closely related to Pseudoroegneria (S); (v) most of the annuals, Triticum s.l. (A, B, D), Crithopsis (K), Taeniatherum (T), Eremopyrum (F), Henrardia (O), Secale (R), and two perennials, Thinopyrum (J) and Lophopyrum (E), all of Mediterranean origin, are a monophyletic group. However, phylogenetic trees based on morphology group these Mediteranean species with various perennial lineages of the Arctic-temperate region. The molecular data and biogeography of the tribe suggest that the Mediterranean lineage is derived from the Arctic-temperate lineage and that the two lineages have evolved in parallel. Extensive morphological parallelism apparently obscures the true genealogical history of the tribe when only morphology is considered.Key words: Poaceae, Triticeae, rDNA sequence, molecular phylogeny, parallel evolution.

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