Assessment of genetic diversity among different sugarcane genotypes using internal transcribed spacer (ITS) region of the ribosomal DNA (rDNA)
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Abstract: Restriction fragment length polymorphism (RFLP) analysis of the ribosomal DNA internal transcribed spacer regions of Bemisia tabaci was used to distinguish cassava‐associated populations from other host‐associated populations. Endonuclease restriction profile analysis indicated that cassava‐associated populations from Africa represent a distinct group, with a significant level of separation into subgroups that were not linked to geographical origin. Analysis of molecular variance ( amova ) revealed that a high proportion of the total genetic variation (47%) was attributable to among‐population differences within the host‐associated groups. Principal coordinate analysis supported the differentiation between the cassava and the non‐cassava group, a result which was in agreement with the cluster analysis of the restriction fragment profile. Internal transcribed spacer RFLP markers, especially Sma I, identified in this study can be used to monitor the spread of B. tabaci biotypes, especially of the more virulent biotype B that has so far not been reported in the cassava‐growing belt of Africa.
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We have cloned and sequenced the ribosomal internal transcribed spacer-1 (ITS1) of Cryptosporidium wrairi. Phylogenetic analysis of this region provided further support to the validity of C. wrairi as a distinct species and also to the concept that many of the genotypes recently identified within C. parvum are in fact separate species. Analysis placed the "cattle" and "mouse" genotypes of C. parvum as each other's closest relatives and C. wrairi as a sister group to these two genotypes, followed by the "human" genotype.
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Geotrichum
Indel
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The authors have studied differences in molecular structures of ribosomal RNA genes (rDNAs) from different heterothallic species of Neurospora: N. crassa, N. intermedia and N. sitophila to detect any possible differences in rDNA sequences of these three species. The authors have made a new clone (named by us as pCC3400) which contains 3250 bps of the external spacer region of N. crassa wild type strain 74A rDNA sequences. This should contain both the promoter and termination regulatory sites for transcription of rRNA. Using this probe the authors have identified that about 300 bp sequences of the external spacer region present in N. crassa are apparently deleted in the species N. intermedia and N. sitophila, based on restriction patterns of 12 different enzymes. Also new restriction sites were determined as a result of the DNA sequencing of the entire ITS (internal transcribed spacer) region of the pMF2 N. crassa rDNA clone. These results were used to look at differences in the ITS regions. In addition the authors have identified a Sma 1 site within 26S rDNA which is deleted from N. intermedia but present in both N. sitophila and N. crassa. An Nru 1 site was detected in the NTES regionsmore » of N. sitophila and of N. intermedia which was not present in that position in N. crassa. All of these studies clearly establish polymorphism of Neurospora rRNA genes.« less
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In order to determine whether a given isolate of Pseudocercosporella herpotrichoides. the cause of eyespot disease of cereals, belongs to the W‐type or the R‐type, we have developed a test based on the polymerase chain reaction (PCR). Sequences of the internal transcribed spacer (ITS) region of the ribosomal genes were determined for three different isolates of each pathotype. Primers complementary to variable sequences were specifically chosen to amplify differentially DNA from W‐ and R‐types. Specific reaction conditions of the PCR assay were experimentally determined by testing four isolates of each type that exhibit a wide range of sensitivity to fungicides.
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The internal transcribed spacers and the 5.8S coding region of nuclear ribosomal DNA were sequenced and analyzed to address questions of generic relationships in Winteraceae. The molecular data generated a single tree that is congruent with one based on morphological data. The sequences of ITS 1 in the family range from 235 to 252 bases in size and of ITS 2 from 213 to 226 bases. The size of the 5.8S coding region is 164 bases. The range of ITS 1 and ITS 2 sequence divergence between pairs of genera within Winteraceae is relatively low in comparison to other plant families. Two types of ITS 1 and ITS 2 sequences were observed in the same individual for some taxa. Sequence variations between the two arrays are 4.7%–6.3% for ITS 1 and 5.1%–7.0% for ITS 2. Both arrays of sequences, however, generate the same phylogenetic relationships. Rates of nucleotide substitutions for the internal transcribed spacers are 3.2–5.2 × 10 ‐10 substitution per site per year estimated in ITS 1 and 3.6–5.7 × 10 ‐10 in ITS 2.
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The internal transcribed spacers and the 5.8S coding region of nuclear ribosomal DNA were sequenced and analyzed to address questions of generic relationships in Winteraceae. The molecular data generated a single tree that is congruent with one based on morphological data. The sequences of ITS 1 in the family range from 235 to 252 bases in size and of ITS 2 from 213 to 226 bases. The size of the 5.8S coding region is 164 bases. The range of ITS 1 and ITS 2 sequence divergence between pairs of genera within Winteraceae is relatively low in comparison to other plant families. Two types of ITS 1 and ITS 2 sequences were observed in the same individual for some taxa. Sequence variations between the two arrays are 4.7%–6.3% for ITS 1 and 5.1%–7.0% for ITS 2. Both arrays of sequences, however, generate the same phylogenetic relationships. Rates of nucleotide substitutions for the internal transcribed spacers are 3.2–5.2 × 10-10 substitution per site per year estimated in ITS 1 and 3.6–5.7 × 10-10 in ITS 2.
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Journal Article Nucleotide sequence of a complete ribosomal spacer of D. melanogaster Get access Antonio Simeone, Antonio Simeone International Institute of Genetics and BiophysicsCNR, v. G. Marconi 10, 80125 Naples, Italy Search for other works by this author on: Oxford Academic PubMed Google Scholar Adriana La Volpe, Adriana La Volpe International Institute of Genetics and BiophysicsCNR, v. G. Marconi 10, 80125 Naples, Italy Search for other works by this author on: Oxford Academic PubMed Google Scholar Edoardo Boncinelli Edoardo Boncinelli International Institute of Genetics and BiophysicsCNR, v. G. Marconi 10, 80125 Naples, Italy Search for other works by this author on: Oxford Academic PubMed Google Scholar Nucleic Acids Research, Volume 13, Issue 4, 25 February 1985, Pages 1089–1101, https://doi.org/10.1093/nar/13.4.1089 Published: 25 February 1985 Article history Received: 21 December 1984 Accepted: 18 January 1985 Published: 25 February 1985
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Trypanosomatids isolated from plants have been assigned typically into the genus Phytomonas. Such designations do not reflect the biology of the diverse isolates; confusion may arise due to the transient presence in plants of monogenetic (insect) trypanosomatids deposited by phytophagous bugs. To develop further molecular markers for the plant kinetoplastids, we have obtained the DNA sequence of the 5S ribosomal RNA gene from 24 isolates harvested from phloem, latex, and fruit. Small, distinct sequence differences were found at the 3'-ends of the transcribed regions; substantial sequence and size differences were found in the non-transcribed regions. Alignment of the gene sequences from all the isolates suggested the presence of eight groupings. While six groups contained isolates from single plant tissues, groups C and A contained isolates from both fruit and latex. The DNA sequences of the 10 phloem-restricted pathogenic isolates from South America and the Carribean were highly conserved and thus comprised a single group (H). The conserved nature of the 5S ribosomal RNA genes in these plant pathogens supports the proposal that they be considered as a distinct section, the phloemicola.
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