Comparative Genomic Hybridization (CGH) in New World Monkeys (Primates) Reveals the Distribution of Repetitive Sequences in Cebinae and Callitrichinae

The intraspecies and interspecies Comparative Genomic Hybridization (CGH) between the closely related Cebidae species, capuchin monkeys (Cebus capucinus, Sapajus apella), and the tamarins (Saguinus mystax, Leontocebus fuscicollis) was performed to analyze their genomes. In particular, this approach determines balanced and unbalanced repetitive DNA sequence distribution and reveals dynamics during evolution. Capuchin monkeys are considered the most ancestral group with conserved syntenies compared to the hypothetical ancestral New World monkeys' karyotype. Also, more derived karyotypes of phylogenetically distant species from the Saguinus and Leontocebus genera are analyzed here. The distribution of repetitive sequences has been traditionally studied through classical staining methods of cytogenetics. It has been hypothesized that repeats are species-specific and their conservation across closely related species are also common; their role in the genome has been extensively studied even though its role in speciation is not well studied and understood. The CGH shows bright signals with balanced and imbalanced DNA involving different genome regions: such as predominantly repetitive DNA at centromeric positions, and interstitial distribution with extended blocks. Cross-species CGH demonstrated the origin of some heterochromatic regions and identified apomorphic heterochromatin expansion events. The uncovered distribution of repetitive sequences is analyzed from an evolutionary perspective to elucidate the genomic dynamics of the repetitive sequences at the level of chromosomal organization.

Assessment of genetic variability in captive capuchin monkeys (Primates: Cebidae)

Capuchin monkeys (genera Cebus and Sapajus) show a wide range distribution, from Honduras to Argentina. The aim of this work was to evaluate the genetic and phenotypic variability of captive specimens putatively belonging to S. cay (SCY) and S. nigritus (SNI) at their southernmost distribution limit. Forty-four individuals held in five captive centers from Argentina were analyzed based on external morphology, karyology and DNA sequences of mitochondrial control region (mtDNA-CR). Three morphotypes associated with their probable geographical origin in SCY and a single morphotype in SNI were found. For SCY we could associate each morphotype with the most frequent karyotype. SNI showed a single phenotype and a homogenous karyotype. Heterochromatin showed geographical patterns within species. A 515-bp mtDNA-CR fragment was sequenced, defining fourteen haplotypes at 59 polymorphic sites. A network constructed with our 14 haplotypes and other 77 from S. apella, S. macrocephalus, S. cay and S. nigritus from bibliography revealed some phylogeographic signals. Our SCY and SNI samples rendered four groups that differed in multiple mutational steps, with SCY being more similar to S. apella than to S. macrocephalus. Also, we identified two genetic divergent SCY groups: samples from NOA and from NEA with high mitochondrial diversity. Our results highlight the relevance of using complementary genetic tools throughout the distribution ranges of SCY and SNI for a better assessment of their diversity.

Genetic analysis of an insular population of Sapajus nigritus (Primates: Cebidae) in Rio de Janeiro state, Brazil

The black-horned capuchin (Sapajus nigritus) is a neotropical primate with wide distribution from southeastern Brazil to northeastern Argentina. Although this species has been described with coat pattern variation, even with intrapopulational differences, and characterized as having the greatest genetic diversity among Sapajus species, there are still few studies on natural populations that contribute to the knowledge of this intraspecific variability. We examined individuals from an as yet unstudied population of Ilha da Marambaia, Rio de Janeiro (RJ) state, Brazil, compared with published data for S. nigritus. We sought to confirm the species through phenotypic and genetic characterization using C-banding and fluorescence in situ hybridization with #11qHe+/21WCP probes for chromosomal constitutive heterochromatin (He+) patterns, and cytochrome c oxidase I and II gene sequences for phylogenetic analysis. The coat presented two color patterns, varying from brown to blackish on the body, yellow to brown on the chest, and white to yellow on the face, besides the presence and shape of the tufts on the head, corresponding to S. nigritus. He+ was identified in pairs 4, 12, 13 and 17, and less consistently in pairs 6, 19 and 21, already described for this species. While most Sapajus species have a large He+ block, here pair 11 was identified without extracentromeric He+, the same as reported for S. nigritus from Argentina. Molecular analysis showed divergence of this population from other S. nigritus sequences, reinforcing a trend already demonstrated when samples from RJ are compared with the rest of the distribution, which may represent an evolutionary deviation.

Analysis of the heterochromatin of Cebus (Primates, Platyrrhini) by micro-FISH and banding pattern comparisons

The karyotype of the neotropical primate genus Cebus (Platyrrhini: Cebidae), considered the most ancestral one, shows the greatest amount of heterochromatin described among Platyrrhini genera. Banding techniques and restriction enzyme digestion have previously revealed great variability of quantity and composition of heterochromatin in this genus. In this context, we use fluorescence in situ hybridization (FISH) to analyse this genomic region and discuss its possible role in the diversification of Cebus.We used a heterochromatin probe for chromosome 11 of Cebus libidinosus (11qHe+ CLI probe), obtained by chromosome microdissection. Twenty-six specimens belonging to the families Atelidae, Cebidae, Callitrichidae and Pithecidae (Platyrrhini) were studied. Fourteen out of 26 specimens were Cebus (Cebidae) individuals of C. libidinosus, C. xanthosternos, C. apella, C. nigritus, C. albifrons, C. kaapori and C. olivaceus. In Cebus specimens, we found 6 to 22 positive signals located in interstitial and telomeric positions along the different species. No hybridization signal was observed among the remaining Ceboidea species, thus reinforcing the idea of a Cebus-specific heterochromatin composed of a complex system of repetitive sequences.

Genome size of two cebus species (primates: platyrrhini) with a fertile hybrid and their quantitative genomic differences

Genome size or C-value is defined as the total amount of DNA contained within a haploid chromosome set and is regarded as a species-specific constant. Speciation among neotropical primates seems to be accompanied by marked quantitative changes in DNA content. A direct correlation between genome size and the presence of heterochromatin has also been proposed. In this work, we analyzed the genome of a female fertile hybrid between Cebus libidinosus and C. nigritus using interspecies comparative genomic hybridization (iCGH), in order to detect quantitative differences between the hybrid and the parental genomes. We also estimated the genome sizes of C. libidinosus and C. nigritus. Both species, considered subspecies of C. apella until 2001, have a highly homologous karyotype but are easily distinguishable at the chromosomal level due to the noncentromeric heterochromatin block on C. libidinosus chromosome 11. Our findings on C-value quantification support the species status for C. libidinosus and C. nigritus, each having a different genome size. The iCGH analysis of the hybrid revealed quantitative differences in comparison to both parental species. The hybrid genome contains a greater amount of DNA in the heterochromatic blocks related to those in the genomes of both parental species. In view of observations in previous and the present work, some hypotheses about genome dynamics of neotropical primates are proposed and discussed.

Pairing and recombination features during meiosis in Cebus paraguayanus (Primates: Platyrrhini)

BACKGROUND

Among neotropical Primates, the Cai monkey Cebus paraguayanus (CPA) presents long, conserved chromosome syntenies with the human karyotype (HSA) as well as numerous C+ blocks in different chromosome pairs.In this study, immunofluorescence (IF) against two proteins of the Synaptonemal Complex (SC), namely REC8 and SYCP1, two recombination protein markers (RPA and MLH1), and one protein involved in the pachytene checkpoint machinery (BRCA1) was performed in CPA spermatocytes in order to analyze chromosome meiotic behavior in detail.

RESULTS

Although in the vast majority of pachytene cells all autosomes were paired and synapsed, in a small number of nuclei the heterochromatic C-positive terminal region of bivalent 11 remained unpaired. The analysis of 75 CPA cells at pachytene revealed a mean of 43.22 MLH1 foci per nucleus and 1.07 MLH1 foci in each CPA bivalent 11, always positioned in the region homologous to HSA chromosome 21.

CONCLUSION

Our results suggest that C blocks undergo delayed pairing and synapsis, although they do not interfere with the general progress of pairing and synapsis.

Phylogenetic studies of the genus Cebus (Cebidae-Primates) using chromosome painting and G-banding

BACKGROUND

Chromosomal painting, using whole chromosome probes from humans and Saguinus oedipus, was used to establish karyotypic divergence among species of the genus Cebus, including C. olivaceus, C. albifrons, C. apella robustus and C. apella paraguayanus. Cytogenetic studies suggested that the species of this genus have conservative karyotypes, with diploid numbers ranging from 2n = 52 to 2n = 54.

RESULTS

Banding studies revealed morphological divergence among some chromosomes, owing to variations in the size of heterochromatic blocks. This analysis demonstrated that Cebus species have five conserved human associations (i.e., 5/7, 2/16, 10/16, 14/15, 8/18 and 3/21) when compared with the putative ancestral Platyrrhini karyotype.

CONCLUSION

The autapomorphies 8/15/8 in C. albifrons and 12/15 in C. olivaceus explain the changes in chromosome number from 54 to 52. The association 5/16/7, which has not previously been reported in Platyrrhini, was also found in C. olivaceus. These data corroborate previous FISH results, suggesting that the genus Cebus has a very similar karyotype to the putative ancestral Platyrrhini.

Karyological diagnosis of Cebus (Primates, Platyrrhini) in captivity: detection of hybrids and management program applications

Genetic data are very important for conservation programs in wild population as well as in captive conditions. Primates in zoos or breeding centers are often maintained in groups without geographic origin or genetic heritage information. These lead to the incorrect assignment of species and introduce an artificial reproductive barrier, which in turn constitutes inadequate management of the colonies. A karyological analysis of specimens from a Primate Reproduction Center, considered as Cebus apella (Platyrrhini), was performed. Cell cultures were conducted from peripheral blood samples following standard cytogenetic methods. A fluorescence in situ hybridization (FISH) procedure was applied in mitotic metaphases using two probes: A specific probe of the extracentromeric heterochromatin (He+) of Cebus, and a human chromosome 21 probe. The latter was chosen due to the known homeology with the euchromatic region limiting with 11qHe+ of Cebus. The species status was determined for at least half of the animals and identified a hybrid specimen using this combined FISH protocol. This procedure is an accurate diagnostic methodology for taxonomic determinations and, therefore can be used for management of reproduction in colonies.

The primates of the Neotropics: genomes and chromosomes

The classification of neotropical primates has been controversial. Different arrangements have been proposed, depending on taxonomic criteria and on the traits selected for phylogenetic reconstructions. These include gross morphologic characters, karyotypic attributes and DNA sequence data of nuclear and mitochondrial genes and of repetitive genomic components. These approaches have substantially clarified the main intergeneric relationships although several intrageneric arrangements still remain to be elucidated. In this review, we compare karyologic and molecular data of this speciose group.

Characterization of constitutive heterochromatin in Cebus apella (Cebidae, Primates) and Pan troglodytes (Hominidae, Primates): comparison to human chromosomes

Using G bands, some homologies between the chromosomes of Cebus apella (CAP) and human chromosomes are difficult to establish. To solve this problem, we analyzed these homologies by fluorescence in situ hybridization using human whole chromosome probes (ZOO-FISH). The results indicated that 1) the human probe for chromosome 2 partially hybridizes with CAP chromosomes 13 and 5, 2) the human probe for chromosome 3 partially hybridizes with CAP chromosomes 18 and 20, 3) the human probe for chromosome 9 partially hybridizes with CAP chromosome 19, and 4) the human probe for chromosome 14 hybridizes with the p-terminal and q-terminal regions of CAP chromosome 6. However, none of the human probes employed hybridized with the heterochromatic regions of CAP chromosomes. For this reason, we characterized the heterochromatic regions of CAP chromosomes and of the chromosomes of Pan troglodytes (PTR), to allow comparison between CAP, PTR, and human chromosomes using in situ digestion of fixed chromosomes with the restriction enzymes AluI, HaeIII, and RsaI and by fluorescent staining with DA/DAPI. The results show that 1) centromeric heterochromatin is heterogeneous in the three species studied and 2) noncentromeric heterochromatin is homogeneous within each of the three species, but is different for each species. Thus, centromeric heterochromatin undergoes a higher degree of variability than noncentromeric heterochromatin.

Chromosome abnormalities in peripheral blood lymphocytes from Cebus apella (Cebidae, Platyrrhini) after X-ray irradiation

In this paper, we describe the results of a qualitative and quantitative study of chromosomal reorganizations observed in X-irradiated (1Gy and 2Gy) and cultured lymphocytes from Cebus apella. A total of 646 breakpoints have been detected, identified and localized in the ideogram of the species. The breakpoint distribution along chromosomes, p and q arms, and bands is not random. Chromosomes #11, #12 and chromosome arms 1p, 12p, 13p, 15p, 11q, and 12q are significantly more affected than expected, while chromosome #19 and chromosome arm 19q are less affected. Terminal regions of chromosome arms accumulate a higher number of breakpoints than the rest of the chromosome (37.82%). A high percentage (93.66%) of breakpoints is found in G negative bands.

Heterochromatin and cytogenetic polymorphisms in Cebus apella (Cebidae, Platyrrhini)

Cytogenetic studies have been carried out in 39 specimens of C. apella of different origins. Three different morphologies, one affecting the long arm of chromosome 4 and two affecting pair 17, have been detected. In each case, they can be related by paracentric inversions. Heterochromatin polymorphisms affecting terminal or interstitial C+ regions have also been observed. The length of the terminal heterochromatic region in the long arms of chromosome 11 is variable in C. apella sp., in C. a. paraguayanus and absent in the C. a. nigritus specimens studied. Interstitial C + bands can be observed in the long arms of the biarmed chromosomes 4 and 6, and in the long arms of the acrocentric pairs 12, 13, 17, 18, 19, 20, and 21. Interstitial C + bands in the long arms of chromosomes 4, 12, 17, and 19 are present in all animals studied, although their size is variable, especially in the case of chromosomes 17 and 19. © 1995 Wiley-Liss, Inc.

Satellite DNA sequences in the New World primate Cebus apella Plaatyrrhini, Primates)

Two satellite DNAs, designated CapA and CapB, were isolated from the neotropical primate, Cebus apella. The satellites exhibit nonoverlapping distributions on C. apella chromosomes. CapA is a major component of interstitial regions of constitutive heterochromatin, a very large block of heterochromatin comprising most of the long arm of chromosome 11, and some telomeres. The CapA monomer has a length of about 1500 bp and appears recently to have undergone an amplification episode in the C. apella genome. CapA-like sequences are probably present in members of the family Cebidae (to which C. apella belongs), but not in members of the family Callitrichidae (marmosets). CapB sequences can be detected at the centromeres of many C. apella chromosomes, and similar sequences are present in all neotropical primates. The 342 bp CapB monomer shares 60%-64% sequence identity with several alpha satellite sequences of human origin. Because of its structure, sequence, and location, it appears that CapB is the New World primate homolog of Old World primate alpha satellite DNA.

The Callimico goeldii (Primates, Platyrrhini) genome: karyology and middle repetitive (LINE-1) DNA sequences

Callimico goeldii (Goeldi's marmoset) is a neotropical primate with 2n = 47,X1X2Y in the male, and 2n = 48,X1X1X2X2 in the female, due to a Y-autosome translocation. Karyological comparisons of Callimico, Callithrix jacchus and Cebus apella suggest that Callimico is a member of the Callitrichidae. Isozyme data and restriction mapping of LINE-1 repetitive elements in these species and in a variety of other neotropical primates confirm these findings and supply strong evidence for including Callimico in the Callitrichidae.

Pattern of late DNA replication of the allocyclic X chromosome in Cebus apella and Leontopithecus rosalia chrysomelas fibroblasts

The pattern of late DNA replication in the allocyclic X chromosome has been studied in the primary fibroblasts of two neotropical primates (Cebus apella and Leontopithecus rosalia chrysomelas). A comparison with previous reports showed a pattern identical with that of (1) the allocyclic X chromosome of human fibroblasts, and (2) the allocyclic X chromosome of rhesus and Cebus lymphocytes. Our results show that at least in one species (C. apella), and probably in rhesus and Leontopithecus, there is no tissue-specific difference between the late DNA replication patterns of the allocyclic X chromosome as there is between human lymphocytes and fibroblasts.