Physical chromosome mapping of repetitive DNA sequences in Nile tilapia Oreochromis niloticus: Evidences for a differential distribution of repetitive elements in the sex chromosomes

Ferreira, Itamar; Martins, Cesar

doi:10.1016/j.micron.2007.02.010

Cited by 69 publications

(65 citation statements)

References 26 publications

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“…The terminal part of the q arm which shows this delayed pairing is characterised by an accumulation of heterochromatin and the presence of transposable elements such as SINE, Ron-1 and CiLINE2 sequences (Oliveira et al, 1999;Harvey et al, 2003), often associated with regions of suppressed recombination in sex chromosomes. There are differences in relative hybridization of microdissected chromosome 1 probes to XX, XY and YY karyotypes and differences in distribution of chromosome 1 repetitive DNA elements between the X and Y chromosomes (Harvey et al, 2003;Ferreira and Martins, 2008), and in the present study we observed differences in DAPI staining of the two copies of chromosome 1 in XY individuals. However, markers in…”

Section: Discussionsupporting

confidence: 53%

FISH and DAPI staining of the synaptonemal complex of the Nile tilapia (Oreochromis niloticus) allow orientation of the unpaired region of bivalent 1 observed during early pachytene

et al. 2009

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Bivalent 1 of the synaptonemal complex (SC) in XY male Oreochromis niloticusshows an unpaired terminal region in early pachytene. This appears to be related to recombination suppression around a sex determination locus. To allow more detailed analysis of this, and unpaired regions in the karyotype of other Oreochromis species, we developed techniques for FISH on SC preparations, combined with DAPI staining. DAPI staining identified presumptive centromeres in SC bivalents, which appeared to correspond to the positions observed in the mitotic karyotype (the kinetochores could only be identified sporadically in silver stained EM SC images). Furthermore, two BAC clones containing Dmo (dmrt4) and OniY227 markers that hybridize to known positions in chromosome pair 1 in mitotic spreads (near the centromere, FLpter 0.25, and the putative sex determination locus, FLpter 0.57, respectively) were used as FISH probes on SCs to verify that the presumptive centromere identified by DAPI staining was located in the expected position. Visualization of both the centromere and FISH signals on bivalent 1 allowed the unpaired region to be positioned at Flpter 0.80 to 1.00, demonstrating that the unpaired region is located in the distal part of the long arm(s). Finally, differences between mitotic and meiotic measurements are discussed. (Foresti et al., 1993; Carrasco et al., 1999; Campos-Ramos et al., 2001;Griffin et al., 2002;Campos-Ramos et al., 2003). The exact relationship between these unpaired regions and sex determining loci in this genus is not clear: for example, a terminal region of the largest bivalent shows delayed pairing in XY O. niloticus but not in XX or YY genotypes (Carrasco et al., 1999), however sex-linked LG1 markers in this species have been mapped by FISH onto a small pair of chromosomes (Lee et al., 2003; Mota-Velasco, unpublished observations; Cnaani et al., 2008). Unpairing in both the largest bivalent and a small bivalent have been observed in WZ O. aureus at pachytene (Campos-Ramos et al., 2001), and linkage studies suggest two unlinked genes affect sex determination in this species, with the dominant one (WZ/ZZ, in LG3) mapping to the largest pair of chromosomes (Lee et al., 2004; Cnaani et al., 2008).The kinetochore (centromere) has been visualised in some TEM synaptonemal complex preparations in O. niloticus (Carrasco et al., 1999), allowing orientation of the unpaired region with respect to the chromosome, but this has not been achieved consistently. In this study, we set out to develop a technique that would allow both identification of the centromere and FISH on pachytene stage chromosomes, using male O. niloticus, with the objective of being able to simultaneously visualise unpaired 4 regions, centromeres and FISH markers at pachytene, to further the study of the role of delayed meiotic pairing in the evolution of sex determination in this genus. 5 Materials and Methods Experimental fishPhenotypic male and female O. niloticus (originating from Lake Manzallah, Egypt) used in this experi...

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Section: Discussionsupporting

confidence: 53%

FISH and DAPI staining of the synaptonemal complex of the Nile tilapia (Oreochromis niloticus) allow orientation of the unpaired region of bivalent 1 observed during early pachytene

et al. 2009

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“…38 Thus, numerous studies identified and physically mapped repetitive sequences to assist in the organization of chromosomal regions rich in repetitive DNA, particularly in heteromorphic sex chromosomes. [39][40][41] C o t-1 DNA is a useful tool to isolate highly and moderately repetitive DNAs, according to Ferreira and Martins 42 and Zhang et al 43 In this study, we described different types of repetitive sequences isolated from the Parodontidae C o t-1 library: satellite DNAs, minisatellite DNAs, microsatellite DNAs, DNA transposons, and retrotransposons. Physical mapping of the total C o t-1 probe revealed locations in the terminal regions of some autosomes, as well as in the proximal region of the short arm of the Z chromosome and in the long arm of the W chromosome of the Apareiodon sp.…”

Section: Discussionmentioning

confidence: 98%

Construction and Characterization of a Repetitive DNA Library in Parodontidae (Actinopterygii: Characiformes): A Genomic and Evolutionary Approach to the Degeneration of the W Sex Chromosome

et al. 2014

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Repetitive DNA sequences, including tandem and dispersed repeats, comprise a large portion of eukaryotic genomes and are important for gene regulation, sex chromosome differentiation, and karyotype evolution. In Parodontidae, only the repetitive DNAs WAp and pPh2004 and rDNAs were previously studied using fluorescence in situ hybridization. This study aimed to build a library of repetitive DNA in Parodontidae. We isolated 40 clones using C o t-1; 17 of these clones exhibited similarity to repetitive DNA sequences, including satellites, minisatellites, microsatellites, and class I and class II transposable elements (TEs), from Danio rerio and other organisms. The physical mapping of the clones to chromosomes revealed the presence of a satellite DNA, a Helitron element, and degenerate short interspersed element (SINE), long interspersed element (LINE), and tc1-mariner elements on the sex chromosomes. Some clones exhibited dispersed signals; other sequences were not detected. The 5S rDNA was detected on an autosomal pair. These elements likely function in the molecular degeneration of the W chromosome in Parodontidae. Thus, the location of these elements on the chromosomes is important for understanding the function of these repetitive DNAs and for integrative studies with genome sequencing. The presented data demonstrate that an intensive invasion of TEs occurred during W sex chromosome differentiation in the Parodontidae.

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“…An enriched library with repetitive sequences of a 0B individual of D. geminatus was constructed on the basis of renaturation kinetics of C 0 t-1 DNA (DNA enriched for highly and moderately repetitive DNA sequences) (Zwick et al, 1997, Ferreira andMartins, 2008). DNA samples (200 ml of 100-500 ng ml À1 genomic DNA in 0.3 M NaCl) were autoclaved for 30 min at 1.4 atmospheres of pressure and 120 1C and the fragmented DNA was separated by electrophoresis with a 1% agarose gel.…”

Section: Methodsmentioning

confidence: 99%

Chromosomal mapping of repetitive DNAs in the beetle Dichotomius geminatus provides the first evidence for an association of 5S rRNA and histone H3 genes in insects, and repetitive DNA similarity between the B chromosome and A complement

2009

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Chromosomal banding techniques and repetitive DNA mapping are useful tools in comparative analysis and in the elucidation of genome organization of several groups of eukaryotes. In this study, we contributed to the knowledge of Coleoptera genomes by reporting the chromosomal organization of repetitive DNA sequences, as well as the presence and characteristics of a B chromosome in two natural populations of Dichotomius geminatus (Coleoptera; Scarabaeidae) using classical, chromosomal banding and molecular cytogenetic techniques. As in other coleopteran species, the heterochromatin was mainly concentrated in pericentromeric regions and the B chromosome was composed almost entirely of heterochromatin. Physical mapping using double fluorescent in situ hybridization was performed for the first time in Coleoptera; using DNA probes for 5S and 18S ribosomal RNA (rRNA) and histone H3 genes, we showed that ribosomal 18S rDNAs are located in chromosomes 3 and 4, whereas 5S rRNA and histone H3 genes are colocalized in chromosomal pair 2 and show an apparently interspersed organization. Moreover, these genes are not present in the B chromosome, suggesting that the B chromosome did not originate from chromosomal pairs 2, 3 or 4. On the other hand, mapping of the C 0 t-1 DNA fraction showed that the B chromosome is enriched in repetitive DNA elements, also present in the standard complement, indicating an intraspecific origin of this element in D. geminatus. These results will contribute to our understanding of genome organization and evolution of repetitive elements in Coleoptera and other insects regarding both A and B chromosomes.

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Physical chromosome mapping of repetitive DNA sequences in Nile tilapia Oreochromis niloticus: Evidences for a differential distribution of repetitive elements in the sex chromosomes

Cited by 69 publications

References 26 publications

FISH and DAPI staining of the synaptonemal complex of the Nile tilapia (Oreochromis niloticus) allow orientation of the unpaired region of bivalent 1 observed during early pachytene

FISH and DAPI staining of the synaptonemal complex of the Nile tilapia (Oreochromis niloticus) allow orientation of the unpaired region of bivalent 1 observed during early pachytene

Construction and Characterization of a Repetitive DNA Library in Parodontidae (Actinopterygii: Characiformes): A Genomic and Evolutionary Approach to the Degeneration of the W Sex Chromosome

Chromosomal mapping of repetitive DNAs in the beetle Dichotomius geminatus provides the first evidence for an association of 5S rRNA and histone H3 genes in insects, and repetitive DNA similarity between the B chromosome and A complement

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