Relationships among Nicotiana species revealed by the 5S rDNA spacer sequence and fluorescence in situ hybridization

Kitamura, Satoshi; Inoue, Masayoshi; Shikazono, Naoya; Tanaka, Atsushi

doi:10.1007/s001220100643

Cited by 52 publications

(35 citation statements)

References 37 publications

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“…4). N. quadrivalvis and N. repanda grouped together with N. obtusifolia (2n = 24) (referred to as N. trigonophylla in Kitamura et al, 2001), a North American species of the Trygonophyllae section. N. africana grouped with N. langsdorffii (2n = 18), a species of the Alatae section.…”

Section: Resultsmentioning

confidence: 99%

“…5h). These 9 chromosomes appeared to be derived from N. langsdorffii based on the karyotype of N. langsdorffii (Goodspeed, 1954;Kitamura et al, 2001).…”

Section: Examination Of Relationships At the Genome Levelmentioning

confidence: 99%

“…These relationships were also examined Goodspeed (1954). ***, Kitamura et al (2001). ****, Kitamura et al (2000).…”

Section: Introductionmentioning

confidence: 99%

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Genomic relationships among Nicotiana species with different ploidy levels revealed by 5S rDNA spacer sequences and FISH/GISH

Kitamura

Tanaka²,

Inoue

2005

Genes Genet. Syst.

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We used the intergenic spacer sequences of the 5S ribosomal RNA genes (5S rDNA) to obtain insights into the genomic origin of putative amphidiploid/tetraploid species with 2n = 48 and their descendants in Nicotiana . Amplification of the spacer sequences and subsequent multiple alignment using the consensus sequences from each species, showed that two Australian species shared common large deletions, suggesting that the origin of the 5S rDNA is closely related in these species. Comparison of the spacer sequences with those from diploid (2n = 24) Nicotiana species made it possible to detect some groups consisting of the sequences from the 2n = 24 and 2n = 48 level species. Chromosomal localizations of the 5S rDNA arrays were similar in most groups. The relationships suggested by the 5S rDNA were also assessed at the genome level by using genomic in situ hybridization.We showed that the grouping based on the 5S rDNA spacer sequence reflects high genomic homology between 2n = 24 and 2n = 48 level species. As a result, the putative polyploid species such as N. debneyi , N. quadrivalvis , and N. africana were suggested to involve the close relatives of the diploid species such as N. glauca , N. obtusifolia and N. sylvestris , and N. langsdorffii , respectively, in their speciation. Our results are generally in agreement with the relationships previously suggested by morphological and cytogenetic observations, and some novel relationships were also revealed.

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Section: Resultsmentioning

confidence: 99%

“…5h). These 9 chromosomes appeared to be derived from N. langsdorffii based on the karyotype of N. langsdorffii (Goodspeed, 1954;Kitamura et al, 2001).…”

Section: Examination Of Relationships At the Genome Levelmentioning

confidence: 99%

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Genomic relationships among Nicotiana species with different ploidy levels revealed by 5S rDNA spacer sequences and FISH/GISH

Kitamura

Tanaka²,

Inoue

2005

Genes Genet. Syst.

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“…We also found that in situ hybridization with the 5S rDNA probe revealed a single proximal site on the long arm of pair 8 in the four species, also associated with a proximal Giemsa + / CMA + /DAPI + band. In other genera such as Nicotiana (Yoong Lim et al 2000, Kitamura et al 2001 and Lycopersicon (Lapitan et al 1991, Xu andEarle 1996) 5S rDNA sites are also located preferentially in the pericentromeric region of the long and short arms. The available information points to the conclusion that, at least for Cestrum species, the location of 45S and 5S rDNA sequences can be conserved in the chromosome field, in the terminal and subterminal region of some chromosomes (45S) and next to the centromere on the long arm of pair 8 (5S).…”

Section: Discussionmentioning

confidence: 99%

Karyotype differentiation of four Cestrum species (Solanaceae) based on the physical mapping of repetitive DNA

et al. 2006

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We studied the karyotypes of four Brazilian Cestrum species (C. amictum, C. intermedium, C. sendtnerianum and C. strigilatum) using conventional Feulgen staining, C-Giemsa and C-CMA 3 /DAPI banding, induction of cold-sensitive regions (CSRs) and fluorescent in situ hybridization (FISH) with rDNA probes. We found that the karyotypes of all four species was 2n = 2x = 16, with, except for the eighth acrocentric pair, a predominance of meta-and submetacentric chromosomes and various heterochromatin classes. Heterochromatic types previously unreported in Cestrum as neutral C-CMA 3 0 /DAPI 0 bands, CMA 3 + bands not associated with NORs, and C-Giemsa/CSR/DAPI -bands were found. The heterochromatic blocks varied in size, number, position and composition. The 45S rDNA probe preferentially located in the terminal and subterminal regions of some chromosomes, while 5S rDNA appeared close to the centromere of the long arm of pair 8. These results suggest that karyotype differentiation can occur mainly due to changes in repetitive DNA, with little modification in the general composition of the conventionally stained karyotype.

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“…The coding sequences are highly conserved across a broad taxonomic range. This variation within the non-transcribed spacer region was found to be useful for the phylogenetic reconstruction of species and even for cultivar identification (Benabdelmouna et al 2001, Baum and Bailey 1997, Baum and Johnson 1994, Kitamura et al 2001. In most higher eukaryotes, the 5S rRNA genes are arranged in tandem arrays at one or more chromosomal loci, mostly separated from the 45S rDNA (Fedoroff 1979).…”

mentioning

confidence: 99%

Simultaneous Detection of 5S and 45S rRNA Genes in Orychophragmus violaceus by Double Fluorescence in situ Hybridization

Cartagena

Fukui

2005

CYTOLOGIA

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Summary Ribosomal RNA (5S and 45S) genes were determined simultaneously by fluorescence in situ hybridization (FISH) in the crucifer Orychophragmus violaceus. It carried twenty-two 5S and eight 45S gene sites. All rDNA sites were at the terminal parts of chromosomes and all eight 45S rDNA sites were colocalized together with 5S rDNA sites with the latter ones being more proximal. Double 5S rDNA sites-two sites of different fluorescent intensities on one chromosome arm separated by a short distance-were found on terminal parts of four chromosomes, with the distal one being stronger than the proximal one. No chromosomes with double 5S rDNA sites carried 45S rDNA sites. The implications of the relative order and distribution of both rDNA sites for the genome structure of the species and the identification of its individual chromosomes in wide hybrids with other species were discussed. Key wordsFluorescence in situ hybridization (FISH), Orychophragmus violaceus, 5 S rDNA genes, 45S rDNA genes, Genome structure Nucleolus organizer regions (NORs) are recognized as secondary constrictions in satellited (SAT) chromosomes. The 18S-5.8S-25S ribosomal RNA genes (45S rDNA) and intergenic spacer regions (18S-25S rDNA) exist as tandem repeats at the NORs and at other chromosomal sites where they may not be associated with an NOR. The 18S-5.8S-25S rRNA genes are present in several hundreds of tandemly repeated units of the three genes with intergenic spacers, organized in one or more clusters within the genome. Recent in situ hybridization experiments using the 18S-25S rDNA as probe have revealed the presence of minor 18S-25S rDNA sites in addition to the major 18S-25S rDNA sites with NOR-forming activity in various cereals (Mukai et al. 1991, Leitch and Heslop-Harrison 1992, Jiang and Gill 1994, Pedersen and Linde-Laursen 1994, Taketa et al. 1999 which are of importance in phylogenetic studies. The origin of minor 18S-25S rDNA sites is not well understood; silver-staining or an analysis of the meiotic association of nucleoli cannot detect their expression. The genes that code for 5S rRNA (5S rDNA) make up an independent multilocus, multigene family and are organized into clusters of tandem repeats with up to thousands of copies of repeated units (Appels and Honeycut 1986). Every repeat unit consists of a transcribed region of approximately 120 bp and a non-transcribed spacer region varying in size and sequence. The coding sequences are highly conserved across a broad taxonomic range. This variation within the non-transcribed spacer region was found to be useful for the phylogenetic reconstruction of species and even for cultivar identification (Benabdelmouna et al. 2001, Baum and Bailey 1997, Baum and Johnson 1994, Kitamura et al. 2001. In most higher eukaryotes, the 5S rRNA genes are

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Relationships among Nicotiana species revealed by the 5S rDNA spacer sequence and fluorescence in situ hybridization

Cited by 52 publications

References 37 publications

Genomic relationships among Nicotiana species with different ploidy levels revealed by 5S rDNA spacer sequences and FISH/GISH

Genomic relationships among Nicotiana species with different ploidy levels revealed by 5S rDNA spacer sequences and FISH/GISH

Karyotype differentiation of four Cestrum species (Solanaceae) based on the physical mapping of repetitive DNA

Simultaneous Detection of 5S and 45S rRNA Genes in Orychophragmus violaceus by Double Fluorescence in situ Hybridization

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