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A new view on the scenario of karyotypic stasis in Epinephelidae fish: Cytogenetic, historical, and biogeographic approaches

Abstract

Epinephelidae (groupers) is an astonishingly diverse group of carnivorous fish widely distributed in reef environments around the world, with growing economic importance. The first chromosomal inferences suggested a conservative scenario for the family. However, to date, this has not been validated using biogeographic and phylogenetic approaches. Thus, to estimate karyotype diversification among groupers, eight species from the Atlantic and Indian oceans were investigated using conventional cytogenetic protocols and fluorescence in situ hybridization of repetitive sequences (rDNA, microsatellites, transposable elements). Despite the remarkable persistence of some symplesiomorphic karyotype patterns, such as all species sharing 2n=48 and most preserve a basal karyotype (2n=48 acrocentrics), the chromosomal diversification in the family revealed an unsuspected evolutionary dynamic, where about 40% of the species escape from the ancestral karyotype pattern. These karyotype changes showed a relation with the historical biogeography, likely as a byproduct of the progressive occupancy of new areas (huge diversity of adaptive and speciation conditions). In this context, oceanic regions harboring more recent clades such as those of the Indo-Pacific, exhibited a higher karyotype diversity. Therefore, the karyotype evolution of Epinephelidae fits well with the expansion and geographic contingencies of its clades, providing a more complex and diverse scenario than previously assumed.

Keywords:
Groupers; animal cytogenetics; pericentric inversions; rDNA; karyotype evolution

Introduction

Reef regions are home to a huge diversity of fish (Bezerra and Silva, 2011Bezerra RCA and Silva AC (2011) Biologia populacional da Piraúna Cephalopholis fulva desembarcada no Porto do Mucuripe, Fortaleza, Estado do Ceará. Rev Bras Eng Pesca 6:11-22.), among which Epinephelidae (groupers) stand out for their exceptional diversity. The family and allies (Epinephelidae and Serranidae) include 593 species and 71 genera distributed around the world (Craig and Hastings, 2007Craig MT and Hastings PA (2007) A molecular phylogeny of the groupers of the subfamily Epinephelinae (Serranidae) with a revised classification of the Epinephelini. Ichthyol Res 54:1-17.; Vaini et al., 2019Vaini JO, Mota KG, Ojeda AP, Barreiros JP, Moreira RG and Hilsdorf AWS (2019) Development and characterization of 20 polymorphic microsatellite markers for Epinephelus marginatus (Lowe, 1834) (perciformes: Epinephelidae) using 454 pyrosequencing. Genet Mol Biol 42:74-79. ; Fricke et al., 2021Fricke R, Eschmeyer W and Fong JD Eschmeyer’s Catalog of Fishes Online, Fricke R, Eschmeyer W and Fong JD Eschmeyer’s Catalog of Fishes Online, https://researcharchive.calacademy.org/research/ichthyology/catalog/SpeciesByFamily.asp (accessed 19 April 2021).
https://researcharchive.calacademy.org/r...
), with the greatest species richness being concentrated in the Indo-Pacific region (Bawole et al., 2018Bawole R, Mudjirahayu, Rembet UNWJ, Amir A, Runtuboi F and Sala R (2018) Exploitation rate of Plectropomus leopardus (Pisces: Serranidae) taken from Rumberpon Island water, Cenderawasih Bay National Park, Indonesia. AACL Bioflux 11:19-28. ).

Groupers present a broad reproductive strategy, including synchronous and asynchronous hermaphroditism (Pressley, 1981Pressley PH (1981) Pair formation and joint territoriality in a simultaneous hermaphrodite: the coral reef fish Serranus tigrinus. Z Tierpsychol 56:33-46.; Liu and Sadovy, 2004Liu M, and Sadovy I (2004) The influence of social factors on adult sex change and juvenile sexual differentiation in a diandric, protogynous epinepheline, Cephalopholis boenak (Pisces, Serranidae). Zool Lond 264:239-248.). Some species can reach up to more than 400 kg (Bright et al., 2016Bright D, Reynolds A, Nguyen NH, Knuckey R, Knibb W and Elizur A (2016) A study into parental assignment of the communal spawning protogynous hermaphrodite, giant grouper (Epinephelus lanceolatus). Aquaculture 459:19-25.), making them an important target for commercial fishing and fish farming (Heemstra et al., 2002Heemstra PC, Anderson WD and Lobel PS (2002) Serranidae. In: Carpenter KE (ed) The living marine resources of the Western Central Atlantic. 5th edition. FAO, Rome, vol. 2, pp 1308-1369.; Rimmer and Glamuzina, 2017Rimmer MA and Glamuzina B (2017) A review of grouper (Family Serranidae: Subfamily Epinephelinae) aquaculture from a sustainability science perspective. Rev Aquac 11:58-87. ). Commercial exploitation has placed groupers among the marine species most impacted by commercial fishing, with 12% of species under threat of extinction (Mitcheson et al., 2013Mitcheson YS, Craig MT, Bertoncini AA, Carpenter KE, Cheung WWL, Choat JH, Cornish AS, Fennessy ST, Ferreira BP, Heentra PC et al. (2013) Fishing groupers towards extinction: A global assessment of threats and extinction risks in a billion dollar fishery. Fish and Fisheries 14:119-136. ). Some biological characteristics contribute to the low restoration of their populations such as slow growth, late maturation, high longevity (i.e., almost 40 years of life), and formation of large agglomerations during the reproductive period (Craig et al., 2011Craig MT, Mitcheson SY and Heemstra PC (2011) Groupers of the world - A field and Market Guide. 1st edition, CRC Press, Grahamstown, 424 pp. ; Santos et al., 2019Santos MR, Katsuragawa M, Zani-Teixeira ML and Favero JMD (2019) Composition and distribution of Serranidae (Actinopterygii: Perciformes) larvae in the Southeastern Brazilian Bight. Braz J Oceanogr 67:e19264. ). However, some species such as the Atlantic goliath grouper (Epinephelus itajara) have responded to conservation measures (Giglio et al., 2014Giglio VJ, Bertoncini AA, Ferreira BP, Hostim-Silva M and Freitas MO (2014) Landings of goliath grouper, Epinephelus itajara in Brazil: despite prohibited over ten years, fishing continues. Nat Conserv 12:118-123.).

Molecular approaches have better clarified the phylogenetic relationships of the family (Minglan et al., 2014Minglan G, Wang S, Su Y, Zhou Y, Liu M and Wang J (2014) Molecular cytogenetic analyses of Epinephelus bruneus and Epinephelus moara (Perciformes, Epinephelidae). Peer J 2:e412.; Ma et al., 2016Ma KY, Craig MT, Choat JH and Herwerden VL (2016) The historical biogeography of groupers: Clade diversification patterns and processes. Mol Phylogenet Evol 100:21-30. ; Ma and Craig, 2018Ma KY and Craig MT (2018) An inconvenient monophyly: an update on the taxonomy of the groupers (Epinephelidae). Copeia 106:443-456.; Saad, 2019Saad YM (2019) Analysis of 16S mitochondrial ribosomal DNA sequence variations and phylogenetic relations among some Serranidae fishes. South African J Anim Sci 49:80-89.). In contrast, cytotaxonomic data are still extremely limited, comprising only 8% of the group representatives. In addition, most of the available information refers to Epinephelus species, and is restricted to conventional analyses of the karyotype (Arai, 2011Arai R (2011) Fish Karyotypes. A check list. 1st edition. Springer Japan, Tokyo, 340 pp. ; Pinthong et al., 2013Pinthong K, Gomontean B, Kongim B, Khakhong S, Sriveerachai T and Supiwong W (2013) Cytogenetic comparison and chromosome localization of the nucleolar organizer region of four grouper genera (Pisces, Epinephelinae) from Thailand. Cytologia 78:223-234.; Paim et al., 2017Paim FG, Almeida LAH, Affonso PRAM, Sobrinho-Scudeler PE, Oliveira C and Diniz D (2017) Chromosomal stasis in distinct families of marine Percomorpharia from South Atlantic. Comp Cytogenet 11:299-307. ).

Most Epinephelidae species have a karyotype composed of 2n = 48, with a predominance of acrocentric chromosomes (Arai, 2011Arai R (2011) Fish Karyotypes. A check list. 1st edition. Springer Japan, Tokyo, 340 pp. ; Tseng and Shih, 2018Tseng MC and Shih KW (2018) Application of karyotype and genetic characterization analyses for hybrid breeding of Epinephelus groupers. Intech open 3:37-51. ), suggesting the maintenance of a basal karyotype with a low evolutionary dynamic. However, chromosomal data of a larger number of representatives, considering their complex evolutionary biogeographical characteristic (Ma et al., 2016Ma KY, Craig MT, Choat JH and Herwerden VL (2016) The historical biogeography of groupers: Clade diversification patterns and processes. Mol Phylogenet Evol 100:21-30. ; Ma and Craig, 2018Ma KY and Craig MT (2018) An inconvenient monophyly: an update on the taxonomy of the groupers (Epinephelidae). Copeia 106:443-456.), have been entirely neglected, still missing pieces for inferences on the extent of the karyotype stability in the family (Motta-Neto et al., 2019Motta-Neto CC, Cioffi MB, Costa GWWF, Amorim KDJ, Bertollo LAC, Artoni RF and Molina WF (2019) Overview on karyotype stasis in Atlantic grunts (Eupercaria, Haemulidae) and the evolutionary extensions for other marine fish groups. Front Mar Sci 6:628. ).

Thus, to understand the mechanism of karyotype evolution among Epinephelidae in depth, conventional cytogenetic analyses and chromosomal mapping of six repetitive DNA classes were performed in eight species from the Atlantic and Indian oceans. The data obtained were associated with a set of other available information, thereby providing a comprehensive view of the chromosomal evolution in a phylogenetic and geographic context.

Material and Methods

Samples, chromosomal preparations, and analyses

Eight species belonging to three Epinephelidae genera, Epinephelus Bloch, 1793: E. itajara (Lichtenstein, 1822), E. adscensionis (Osbeck, 1765), E. coeruleopunctatus (Bloch, 1790), E. erythrurus (Valenciennes, 1828), and E. sexfasciatus (Valenciennes, 1828); Cephalopholis Bloch and Schneider, 1801: C. fulva (Linnaeus, 1758) and C. formosa (Shaw, 1812); and Rypticus Cuvier, 1829: R. saponaceus (Bloch and Schneider, 1801) were analyzed. The experiments followed ethical rules approved by the Animal Ethics Committee of the Federal University of Rio Grande do Norte (Process #44/ 2015), and by the Institutional Animal Care and Use Committee of Khon Kaen University, based on the Ethics of Animal Experimentation of the National Research Council of Thailand IACUC-KKU-10/62.

Details of the size and location of the samples are presented in Table 1 and Figure 1. Individuals were subjected to a 24 h mitotic stimulation using intraperitoneal inoculation of a complex of fungal and bacterial antigens (Molina et al., 2010Molina WF, Alves DE, Araújo WC, Martinez PA, Silva MF and Costa GWWF (2010) Performance of human immunostimulating agents in the improvement of fish cytogenetic preparations. Genet Mol Res 9:1807-1814.). Chromosome preparations were obtained from cell suspensions of the anterior region of the kidney using a short-term culture as described by Gold et al. (1990Gold JR, Li YC, Shipley NS and Powers PK (1990) Improved methods for working with fish chromosomes with a review of metaphase chromosome banding. J Fish Biol 37:563-575.). Chromosomes were stained using a standard 5% Giemsa solution (pH 6.8) and analyzed under an optical microscope at a magnification of 1000×. The nucleolus organizing regions (NORs) and C-positive heterochromatin were identified following Howell and Black (1980Howell WM and Black DA (1980) Controlled silver-staining of nucleolus organizer regions with a protective colloidal developer: A 1-step method. Experientia 36:1014-1015.) and Sumner (1972Sumner AT (1972) A simple technique for demonstrating centromeric heterochromatin. Exp Cell Res 75:304-306.), respectively.

Table 1 -
Epinephelidae species analyzed in the present study.

Figure 1 -
Collection sites of Epinephelus itajara, Epinephelus adscensionis, Rypticus saponaceus, and Cephalopholis fulva species, all from the Atlantic Ocean, and of Cephalopholis formosa, Epinephelus coeruleopunctatus, Epinephelus erythrurus, and Epinephelus sexfasciatus species, all from the Indian Ocean.

Probes for chromosome hybridization

5S rDNA (~ 200 bp) and 18S rDNA (~ 1400 bp) probes were obtained by PCR from the nuclear DNA of Rachycentron canadum (Teleostei, Perciformes) using the primers A 5’-TAC GCC CGA TCT CGT CCG ATC-3’ and B 5’- CAG GCT GGT ATG GCC GTA AGC-3’ (Pendás et al., 1994Pendás AM, Moran P, Freije JP and Garcia-Vazquez E (1994) Chromosomal mapping and nucleotide sequence of two tandem repeats of Atlantic salmon 5S rDNA. Cytogenet Genome Res 67:31-36.), and NS1 5’-GTA GTC ATA TGC TTG TCT C-3’ and NS8 5’-TCC GGT GCA TCA CCT ACG GA-3’ (White et al., 1990White TJ, Bruns S, Lee S and Taylor J (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis MA, Gelfand DH, Sninsky JJ and White TJ (eds). PCR Protocols a guide to methods and applications. 1st edition. Academic Press, London, pp 315-322.), respectively. 5S rDNA and 18S rDNA probes were labeled by nick translation with biotin-14-dATP and digoxigenin-11-dUTP, respectively, according to the manufacturer’s specifications (Roche Mannheim, Germany). Tol2 (~ 200 bp) and Rex3 (~ 200 bp) probes were amplified using PCR from the nuclear DNA of E. itajara using the primers Tol2-5F 5′ -CTG TCA CTC TGA TGA AAC AG-3′ and Tol2-5R 5′ -CTT TGA CCT TAG GTT TGG GC-3′ (Kawakami and Shima, 1999Kawakami K and Shima A (1999) Identification of the Tol2 transposase of the medaka fish Oryzias latipes that catalyzes excision of a nonautonomous Tol2 element in zebrafish Danio rerio. Gene 240:239-244. ) and Rex3-F5’ -YAA TGA CGG AGG GCC CGG CA-3′ and Rex3-5′-TGG GTG GTG GGG CAG GT ACN-3′ (Volff et al., 1999Volff JN, Körting C, Sweeney K and Schartl M (1999) The non-LTR retrotransposon Rex3 from the fish Xiphophorus is widespread among teleosts. Mol Biol Evol 16:1427-1438. ; 2000Volff JN, Körting C and Schartl M (2000) Multiple lineages of the non-LTR retrotransposon Rex1 with varying success in invading fish genomes. Mol Biol Evol 17:1673-1684.) and labeled with digoxigenin-11-dUTP by nick translation (Roche Mannheim, Germany). In situ hybridizations with (CA)15 and (GA)15 microsatellites were performed as described by Kubat et al. (2008Kubat Z, Hobza R, Vyskot B and Kejnovsky E (2008) Microsatellite accumulation on the Y chromosome in Silene latifolia. Genome 51:350-356. ) using oligonucleotides labeled with Alexa Fluor 555 at the 5’ terminal position (InvitrogenTM, Thermo Fisher Scientific, California, USA).

Hybridization experiments

Fluorescence in situ hybridization (FISH) was performed as described by Pinkel et al. (1986Pinkel D, Straume T and Gray JW (1986) Cytogenetic analysis using quantitative, high-sensitivity, fluorescence hybridization. Proc Natl Acad Sci U S A 83:2934-2938. ). Chromosomes were treated with RNAse (20 µg/mL in 2× SSC) for 1 h and with pepsin (0.005% in 10 mM HCl) for 10 min at 37 °C, followed by a step of fixation with 1% formaldehyde for 10 min and dehydration in an alcoholic series (70%/85%/100%) for 5 min. The slides were incubated in 70% formamide/2× SSC for 5 min at 72 °C and dehydrated in an alcohol series (70%/85%/100%) for 5 min. The hybridization process was performed for 16 h at 37 °C using a hybridization solution of 50% formamide, 2× SSC, 10% dextran sulfate, and denatured probe (5 ng/µL) in a final volume of 30 µL. Post-hybridization washes were performed in 15% formamide/0.2× SSC for 20 min at 42 °C, followed by washes in 0.1× SSC for 15 min at 60 °C and in Tween-20 0.5%/4× SSC for 5 min at 25 °C. Subsequently, the slides were incubated for 15 min in 5% non-fat dry milk (NFDM)/4× SSC blocking buffer and washed in 0.5% Tween-20/4× SSC for 15 min. The hybridization signals were detected using a streptavidin-FITC conjugate for the 5S rDNA probe and anti-digoxigenin rhodamine conjugate (Roche Mannheim, Germany) for the 18S rDNA probe. Chromosomes were counterstained with Vectashield/DAPI (1.5 µg/mL) (Roche Mannheim, Germany).

Digital image processing

The best metaphases were photographed using an Olympus BX51 epifluorescence microscope coupled with an Olympus DP73 digital capture system using the cellSens® software (Olympus). Chromosomes were defined as metacentric (m), submetacentric (sm), subtelocentric (st), and acrocentric (a), according to Levan et al. (1964Levan A, Fredga K and Sandberg A (1964) Nomenclature for centromeric position at chromosomes. Hereditas 52:201-220. ). To count the chromosome arms (FN), the m, sm, and st chromosomes were considered with two arms and the acrocentric chromosomes with only one arm.

Results

All analyzed species shared the same 2n = 48 chromosome number. However, while E. adscensionis, E. coeruleopunctatus, E. erythrurus, E. sexfasciatus, C. fulva, and R. saponaceus showed karyotypes composed exclusively by acrocentric chromosomes (FN = 48a), E. itajara had 6sm + 42a (FN = 54), and C. formosa had 4sm + 44a (FN = 52) chromosomes. In all species, small-sized heterochromatic blocks were localized mainly in the centromeric regions of the chromosomes (Figures 2 and 3).

Figure 2 -
Karyotypes of Epinephelus adscensionis, Epinephelus coeruleopunctatus, Epinephelus erythrurus, and Epinephelus sexfasciatus after Giemsa staining, C-banding, and fluorescence in situ hybridization with 18S (red) and 5S (green) rDNA probes. Chromosomes carrying Ag-NORs sites are highlighted in the boxes. Scale bar = 5 μm.

Figure 3 -
Karyotypes of Epinephelus itajara, Cephalopholis formosa, Cephalopholis fulva, and Rypticus saponaceus after Giemsa staining, C-banding, and fluorescence in situ hybridization with 18S (red) and 5S (green) rDNA probes. Chromosomes carrying Ag-NORs sites are highlighted in the boxes. Scale bar = 5 μm.

The 18S rDNA and the Ag-NOR sites were coincident and occupied a single locus in the karyotype of all species, always in the short arms of the chromosomes. In E. adscensionis, E. coeruleopunctatus, E. erythrurus, E. sexfasciatus, and C. fulva, they were localized in the acrocentric pair 24 (Figure 2), while were localized in the submetacentric pair 1 of E. itajara and C. formosa, and in the acrocentric pair 20 of R. saponaceus (Figure 3). The 5S rDNA sequences also displayed a single site in the short arms of the chromosomes in all species. In E. adscensionis, E. coeruleopunctatus, E. erythrurus, E. sexfasciatus, E. itajara, C. formosa, and C. fulva they occurred in the acrocentric pair 23 and in the acrocentric pair 14 of R. saponaceus (Figures 2 and 3).

The microsatellites (CA)15 and (GA)15 had a scattered chromosomal distribution, with some more prominent clusters in the centromeric and terminal regions of some pairs (Figures 4 and 5). Tol2 transposons also showed a diffuse distribution, while Rex3 presented discrete accumulations in the centromeric and terminal chromosomal regions in all species, especially in E. itajara, in which more evident signals were detected (Figures 4 and 5).

Figure 4 -
Fluorescence in situ hybridization mapping of (CA)15 and (GA)15 microsatellites, and Tol2 and Rex3 transposable elements, in mitotic chromosomes of Epinephelus adscensionis, Epinephelus coeruleopunctatus, Epinephelus erythrurus, and Epinephelus sexfasciatus. Scale bar = 5 μm.

Figure 5 -
Fluorescence in situ hybridization mapping of (CA)15 and (GA)15 microsatellites, and Tol2 and Rex3 transposable elements, in mitotic chromosomes of Epinephelus itajara, Cephalopholis formosa, Cephalopholis fulva, and Rypticus saponaceus. Scale bar = 5 μm.

Discussion

Chromosomal profiles

Most Perciformes fish have retained considerable levels of chromosomal conservatism, with karyotypes composed of 2n = 48a and FN = 48 (Motta-Neto et al., 2019Motta-Neto CC, Cioffi MB, Costa GWWF, Amorim KDJ, Bertollo LAC, Artoni RF and Molina WF (2019) Overview on karyotype stasis in Atlantic grunts (Eupercaria, Haemulidae) and the evolutionary extensions for other marine fish groups. Front Mar Sci 6:628. ). The distribution of such karyotype among several Epinephelidae clades (Table 2), including the ancient Plectropomus clade (~ 36 Mya) and recent lineages such as Alfestes (~ 5 Mya; Ma et al., 2016Ma KY, Craig MT, Choat JH and Herwerden VL (2016) The historical biogeography of groupers: Clade diversification patterns and processes. Mol Phylogenet Evol 100:21-30. ), supports 2n = 48a as the basal state for this family.

Table 2 -
Cytogenetic data available for groupers (Epinephelidae and Serranidae) species.

The maintenance of this diploid number in all analyzed species represents a phylogenetic pattern in Epinephelidae. On the other hand, the karyotype macrostructure (2n = 48a; FN = 48), although still retained in most groupers, behaves as a more dynamic evolutionary trait. In fact, similar to E. itajara (2n = 48; FN = 54) and C. formosa (2n = 48; FN = 52), over 40% of the Epinephelidae species have some karyotype diversification associated with pericentric inversions, thereby increasing the number of chromosome arms (FN = 48-96) (Table 2). This evolutionary trend, which has been better evidenced as chromosomal data increase, is considered as a moderate diversification and reveals an unexpected context for Epinephelidae.

A low rate of evolutionary changes is also evidenced in some repetitive DNA sequences, as highlighted by remarkable homeologies among the Ag-NOR/18S rDNA-bearing pairs in most Epinephelidae species. Indeed, in addition to five of the eight species analyzed (E. adscensionis, E. coeruleopunctatus, E. erythrurus, E. sexfasciatus and C. fulva), the localization of the major rDNA sites on the smallest pair of the karyotype (pair 24) is a symplesiomorphic array shared by a vast number of species (e.g. Martinez et al., 1989Martinez G, Thode G, Alvarez MC and López JR (1989) C-banding and Ag-NOR reveal heterogeneity among karyotypes of serranids (Perciformes). Cytobios 58:53-60. ; Zou et al., 2005Zou JX, Yu QX and Zhou F (2005) The karyotypes C-bands patterns and Ag-NORs of Epinephelus malabaricus. SCImago 29:33-37.; Wang et al., 2012Wang SF, Cai Y, Qin YX, Zhou YC, Su YQ and Wang J (2012) Characterization of yellow grouper Epinephelus awoara (Serranidae) karyotype by chromosome bandings and fluorescence in situ hybridization. J Fish Biol 80:866-875. ; Tseng and Shih, 2018Tseng MC and Shih KW (2018) Application of karyotype and genetic characterization analyses for hybrid breeding of Epinephelus groupers. Intech open 3:37-51. ), as indicated in Figure 6. In addition, non-syntenic arrays of the 18S and 5S loci, which are also frequent among teleost groups (Lucchini et al., 1993Lucchini S, Nardi I, Barsacchi G, Batistoni R and Andronico F (1993) Molecular cytogenetics of the ribosomal (18S + 28S and 5S) DNA loci in primitive and advanced urodele amphibians. Genome 36:762-773. ; Suzuki et al., 1996Suzuki H, Moriwaki K and Sakurai S (1996) Rat rDNA spacer sequences and chromosomal assignment of the genes to the extreme terminal region of chromosome 19. Cytogenet Cell Genet 72:1-4. ; Gornung, 2013Gornung E (2013) Twenty years of physical mapping of major ribosomal rna genes across the teleosts: A review of research. Cytogenet Genome Res 141:90-102.), are present in all of the eight species analyzed, as well as in several other serranids (Sola et al., 2000Sola L, Innocentiis S, Gornung E, Papalia S, Rossi AR, Marino G, Marco P and Cataudella S (2000) Cytogenetic analysis of Epinephelus marginatus (Pisces: Serranidae), with the chromosome localization of the 18S and 5S rRNA genes and of the (TTAGGG)(n) telomeric sequence. Mar Biol 137:47-51. ; Wang et al., 2012Wang SF, Cai Y, Qin YX, Zhou YC, Su YQ and Wang J (2012) Characterization of yellow grouper Epinephelus awoara (Serranidae) karyotype by chromosome bandings and fluorescence in situ hybridization. J Fish Biol 80:866-875. ; Paim et al., 2017Paim FG, Almeida LAH, Affonso PRAM, Sobrinho-Scudeler PE, Oliveira C and Diniz D (2017) Chromosomal stasis in distinct families of marine Percomorpharia from South Atlantic. Comp Cytogenet 11:299-307. ) (Figure 6). However, in spite of this, some alternative arrangements such as multiple 18S rDNA sites (Minglan et al., 2014Minglan G, Wang S, Su Y, Zhou Y, Liu M and Wang J (2014) Molecular cytogenetic analyses of Epinephelus bruneus and Epinephelus moara (Perciformes, Epinephelidae). Peer J 2:e412.) or the co-localization of the 18S/5S sites in the same chromosome pair (Amorim et al., unpublished data) can occur, although not expressively. The distribution of heterochromatin also offers a little discriminatory condition, since it is commonly located in the centromeric/pericentromeric regions, as observed in all the species analyzed, as well as in many other Percomorpha groups (Sola et al., 2000Sola L, Innocentiis S, Gornung E, Papalia S, Rossi AR, Marino G, Marco P and Cataudella S (2000) Cytogenetic analysis of Epinephelus marginatus (Pisces: Serranidae), with the chromosome localization of the 18S and 5S rRNA genes and of the (TTAGGG)(n) telomeric sequence. Mar Biol 137:47-51. ; Motta-Neto et al., 2011Motta-Neto CC, Cioffi MB, Bertollo LAC and Molina WF (2011) Extensive chromosomal homologies and evidence of karyotypic stasis in Atlantic grunts of the genus Haemulon (Perciformes). J Exp Mar Bio Ecol 401:75-79.; Minglan et al., 2014Minglan G, Wang S, Su Y, Zhou Y, Liu M and Wang J (2014) Molecular cytogenetic analyses of Epinephelus bruneus and Epinephelus moara (Perciformes, Epinephelidae). Peer J 2:e412.; Noikotr et al., 2014Noikotr K, Pinthong K, Tanomtong A, Sudmoon R, Chaveerach A and Tanee T (2014) Karyotype analysis of two groupers, Epinephelus species (Serranidae). Caryologia 67:63-65. ).

Figure 6 -
Karyotypic patterns of groupers (Epinephelidae and Serranidae) species from biogeographic and phylogenetic (based on Ma et al., 2016Ma KY, Craig MT, Choat JH and Herwerden VL (2016) The historical biogeography of groupers: Clade diversification patterns and processes. Mol Phylogenet Evol 100:21-30. ) perspectives. The larger circles indicate the percentage of chromosome arms (FN) in the karyotypes according to the oceanic distribution of the species. Smaller black circles indicate the occurrence of a single Ag-NORs locus (24 pair or other), and the black/gray ones indicate the multiple Ag-NORs loci, according to their distribution in the chromosome pairs.

Karyotype conservatism is thought to be related to a high level of synteny, with chromosomal sharing similar gene organization and DNA classes arrays (Ellegren, 2010Ellegren H (2010) Evolutionary stasis: the stable chromosomes of birds. Trends Ecol Evol 25:283-291.; Zhang et al., 2019Zhang D, Guo L, Guo H, Zhu KC, Li SQ, Zhang Y, Zang N, Liu BS, Jiang SG and Li JT (2019) Chromosome-level genome assembly of golden pompano (Trachinotus ovatus) in the family Carangidae. Sci Data 6:216.). In this respect, the chromosomal prospecting of a diversified set of repetitive sequences allowed the estimation of evolutionary changes in different fish groups (Cioffi and Bertollo, 2012Cioffi MB and Bertollo LAC (2012) Chromosomal distribution and evolution of repetitive DNAs in fish. Genome Dyn 7:197-221. ; Costa et al., 2015Costa GWWF, Cioffi MDB, Bertollo LAC and Molina WF (2015) Structurally complex organization of repetitive DNAs in the genome of cobia (Rachycentron canadum). Zebrafish 12:215-220. ; Lima-Filho et al., 2015Lima-Filho PA, Amorim KD, Cioffi MB, Bertollo LAC and Molina WF (2015) Chromosomal mapping of repetitive DNAs in Gobionellus oceanicus and G. stomatus (Gobiidae; Perciformes): A shared XX/XY system and an unusual distribution of 5S rDNA sites on the Y chromosome. Cytogenet Genome Res 144:333-40.; Getlekha et al., 2016aGetlekha N, Molina WF, Cioffi MB, Yano CF, Maneechot N, Bertollo LAC, Supiwong W and Tanomtong A (2016a) Repetitive DNAs highlight the role of chromosomal fusions in the karyotypr evolution of Dascyllus species (Pomacentridae, Perciformes). Genetica 144:203-211. ). In the present study, (CA)15 and (GA)15 microsatellites showed a dispersed distribution among chromosomes, with sporadic clusters in the centromeric heterochromatin of some species. This pattern contrasts with that presented by several Percomorpha species (Costa et al., 2015Costa GWWF, Cioffi MDB, Bertollo LAC and Molina WF (2015) Structurally complex organization of repetitive DNAs in the genome of cobia (Rachycentron canadum). Zebrafish 12:215-220. ), where conspicuous and diversified chromosomal clusters occur within the same species or among co-familiar species (Silva et al., 2020Silva SAS, Lima-Filho PA, Motta-Neto CC, Costa GWWF, Cioffi MB, Bertollo LAC and Molina WF (2020) High chromosomal evolutionary dynamics in sleeper gobies (Eleotridae) and notes on disruptive biological factors in Gobiiformes karyotypes (Osteichthyes, Teleostei). Mar Life Sci Technol 3:293-302.).

Transposable elements, which can act at different genetic levels, including epigenetic regulation, are important components of the genome of marine fish (Aparicio et al., 2002Aparicio S, Chapman J, Stupka E, Putnam N, Chia JM, Dehal P, Christoffels A, Rash S, Hoon S, Smit A et al. (2002) Whole-genome shotgun assembly and analysis of the genome of Fugu rubripes. Science 297:1301-1310.; Terencio et al., 2015Terencio ML, Schneider CH, Gross MC, Carmo E, Nogaroto V, Almeida MC, Artoni RF, Vicari MR and Feldberg E (2015) Repetitive sequences: The hidden diversity of heterochromatin in prochilodontid fish. Comp Cytogenet 9:465-481.; Xiao et al., 2020Xiao Y, Xiao Z, Ma D, Zhao C, Liu L, Wu H, Nie W, Xiao S, Liu J, Li J et al. (2020) Chromosome-level genome reveals the origin of neo-Y chromosome in the male barred knifejaw Oplegnathus fasciatus. iScience 23:e101039.). In most of the analyzed species, Tol2 presented a dispersed distribution in the karyotype, except for some centromeric clusters in E. adscensionis. In turn, Rex3 showed a more discriminated distribution, with conspicuous accumulation in multiple centromeric and telomeric regions, mainly in E. itajara, a species displaying a more differentiated karyotype among the eight analyzed. This transposable element overlaps with heterochromatic regions, probably co-located with the microsatellites (CA)15 and (GA)15, which suggests a shared evolution of both repetitive DNA classes, as also proposed for other fish species (Da Silva et al., 2002Da Silva C, Hadji H, Ozouf-Costaz C, Nicaud S, Jaillon O, Weissenbrach J and Crollius HR (2002) Remarkable compartmentalization of transposable elements and pseudogenes in the heterochromatin of the Tetraodon nigroviridis genome. Proc Natl Acad Sci U S A 99:1636-1641.; Fischer et al., 2004Fischer C, Bouneau L, Coutenceau JP, Weissenbach J, Vollf JN and Ozouf-Costaz C (2004) Global heterochromatic colocalization of transposable elements with minisatellites in the compact genome of the pufferfish Tetraodon nigroviridis. Gene 33:175-183.; Costa et al., 2013Costa GWWF, Cioffi MB, Bertollo LAC and Molina WF (2013) Transposable elements in fish chromosomes: A study in the marine cobia species. Cytogenet Genome Res 141:126-132. ).

Overall, the micro- and macrostructural profiles presented by grouper species indicate an intermediate evolutionary rate between clades with larger (Silva et al., 2020Silva SAS, Lima-Filho PA, Motta-Neto CC, Costa GWWF, Cioffi MB, Bertollo LAC and Molina WF (2020) High chromosomal evolutionary dynamics in sleeper gobies (Eleotridae) and notes on disruptive biological factors in Gobiiformes karyotypes (Osteichthyes, Teleostei). Mar Life Sci Technol 3:293-302.) and much lower (Getlekha et al., 2016bGetlekha N, Cioffi MB, Yano CF, Maneechot N, Bertollo LAC, Supiwong W, Tanomtong A and Molina WF (2016b) Chromosome mapping of repetitive DNAs in sergeant major fishes (Abudefdufinae, Pomacentridae): a general view on the chromosomal conservatism of the genus. Genetica 144:567-576.) degrees of chromosomal variation.

Historical cytobiogeography and karyotype divergences

The Atlantic Ocean represents the probable origin center of the Epinephelidae family, from where lineages moved from its eastern region and colonized the Indian and Pacific Oceans by the Tethys Sea (Ma et al., 2016Ma KY, Craig MT, Choat JH and Herwerden VL (2016) The historical biogeography of groupers: Clade diversification patterns and processes. Mol Phylogenet Evol 100:21-30. ). During their extensive evolutionary history, estimated at 60 Mya (Ma et al., 2016Ma KY, Craig MT, Choat JH and Herwerden VL (2016) The historical biogeography of groupers: Clade diversification patterns and processes. Mol Phylogenet Evol 100:21-30. ), groupers experienced an extraordinary conservation of the diploid number (2n = 48; all currently analyzed species), followed by a less extensive conservatism of the chromosomal morphologies (~60% of species). Notably, the enlarged set of the karyotype patterns of the groupers, including the eight species investigated here, evidenced an increase in the karyotype diversification associated to the historical-geographic dispersion of their species. Indeed, while in the Atlantic Ocean, 87% of the analyzed species share the 2n = 48a basal karyotype (Table 2), this pattern is reduced to 56% of the Pacific, 55% of the Indo-Pacific, and only to 33% of the Indian Ocean species (Figure 6).

Until the Miocene, approximately 23 Mya, epinephelids had a low diversity in the Indian and Pacific oceans (Wilson and Rosen, 1998Wilson MEJ and Rosen BR (1998) Implications of paucity of corals in the Paleogene of SE Asia: Plate tectonics or centre of origin. In: Hall R and Holloway JD (eds). Biogeography and geological evolution of SE Asia. Backhuys Publishers, Netherlands, pp. 165-195.; Renema et al., 2008Renema W, Bellwood DR, Braga JC, Bromfield K, Hall R, Johnson KG, Lunt P, Meyer CP, McMonagle LB, Morley RJ et al. (2008) Hopping hotspots: global shifts in marine biodiversity. Science 321:654-657. ). When the invasion of the Indo-Pacific region occurred, historical tectonic processes promoted multiple reef habitats in that region, generating conditions for distinct evolutionary opportunities (Rohde and Muller, 2005Rohde RA and Muller RA (2005) Cycles in fossil diversity. Nature 434:208-210. ; Carpenter et al., 2011Carpenter KE, Barber PH, Crandall ED, Ablan-Lagman MCA, Ambariyanto, Mahardika GN, Manjaji-Matsumoto MB, Juinio-Meñez MA, Santos MD, Starger CJ et al. (2011) Comparative Phylogeography of the Coral Triangle and implications for marine management. J Mar Biol 2011:396982. ). Indeed, sympatric and allopatric divergences in a short period of time, defined the contemporary diversity of the groupers (Craig et al., 2001Craig MT, Pondella DJ, Franck JPC and Hafner LC (2001) On the status of the serranid fish genus Epinephelus: evidence for paraphyly based on 16S rDNA sequence. Mol Phylogenet Evol 19:121-130.; Ma et al., 2016Ma KY, Craig MT, Choat JH and Herwerden VL (2016) The historical biogeography of groupers: Clade diversification patterns and processes. Mol Phylogenet Evol 100:21-30. ; Ma and Craig, 2018Ma KY and Craig MT (2018) An inconvenient monophyly: an update on the taxonomy of the groupers (Epinephelidae). Copeia 106:443-456.), in agreement with the karyotype diversification of some groups.

Some features such as hermaphroditism, reproductive aggregations, high dispersive potential, and ecological plasticity are considered as gene flow maintainers and contributors to karyotype stability among groupers, as well as physical environment characteristics (Molina et al., 2014Molina WF, Martinez PA, Bertollo LAC and Bidau CJ (2014) Preferential accumulation of sex and bs chromosomes in biarmed karyotypes by meiotic drive and rates of chromosomal changes in fishes. An Acad Bras Cienc 4:1801-1812.; Motta-Neto et al., 2019Motta-Neto CC, Cioffi MB, Costa GWWF, Amorim KDJ, Bertollo LAC, Artoni RF and Molina WF (2019) Overview on karyotype stasis in Atlantic grunts (Eupercaria, Haemulidae) and the evolutionary extensions for other marine fish groups. Front Mar Sci 6:628. ). In this case, the exploration and historical adaptation to new habitats may have had a disturbing effect on the modern grouper lineages, contributing to the disruption of the latent stability of the karyotype in the new colonization areas. Consequently, changes in the genome related to transposable elements (Schrader and Schmitz, 2019Schrader L, Schmitz J (2019) The impact of transposable elements in adaptive evolution. Mol Ecol 28:1537-1549.) and other repetitive sequences were established. In this context, adaptive pericentric inversions (Hoffmann and Rieseberg, 2008Hoffmann AA and Rieseberg LH (2008) Revisiting the impact of inversions in evolution: from population genetic markers to drivers of adaptive shifts and speciation? Annu Rev Ecol Evol Syst 39:21-42. ) could also be fixed as derived traits in some Epinephelidae species.

Notably, cytogenetic patterns of serranids have maintained a basal karyotype with 2n = 48 chromosomes for a long period since their origin. Chromosomal homeologies are also evidenced by similar physical and compositional patterns of repetitive sequences such as ribosomal DNA, microsatellites, and transposable elements. Despite this, evident divergences in the evolution of the karyotype also occur, especially among the more recent Epinephelidae lineages, suggesting a close correlation with the colonization of new habitats and evolutionary circumstances. In fact, the set of chromosomal data available showed a more extensive karyotype diversification associated with geographic expansion events (Ma et al., 2016Ma KY, Craig MT, Choat JH and Herwerden VL (2016) The historical biogeography of groupers: Clade diversification patterns and processes. Mol Phylogenet Evol 100:21-30. ) in the family. Therefore, the chromosomal evolution of the Epinephelidae proves to be more dynamic and diverse than supposed, with direct mediation of its historical and geographical contingencies.

Acknowledgements

The authors would like to thank CNPq (National Council for Scientific and Technological Development) for financial assistance (Process nº 442664/2015-0), CAPES (Coordenação de Aperfeiçoamento de Pessoal de Nível Superior) for the scholarship granted to KDJA, to the Instituto Brasileiro do Meio Ambiente e dos Recursos Naturais Renováveis - IBAMA for the license to collect the specimens (Process No. 19135-8) and Federal University of Rio Grande do Norte - UFRN, for providing the means to carry out the study.

References

  • Aguilar CT (1993) Estudos citogenéticos em Serranidae (Pisces, Perciformes). M. Sc. Thesis, Universidade Federal do Rio de Janeiro.
  • Aguilar CT and Galetti PM (1997) Chromosomal studies in South Atlantic Serranids (Pisces, Perciformes). Cytobios 357:105-114.
  • Aparicio S, Chapman J, Stupka E, Putnam N, Chia JM, Dehal P, Christoffels A, Rash S, Hoon S, Smit A et al (2002) Whole-genome shotgun assembly and analysis of the genome of Fugu rubripes Science 297:1301-1310.
  • Arai R (2011) Fish Karyotypes. A check list. 1st edition. Springer Japan, Tokyo, 340 pp.
  • Bawole R, Mudjirahayu, Rembet UNWJ, Amir A, Runtuboi F and Sala R (2018) Exploitation rate of Plectropomus leopardus (Pisces: Serranidae) taken from Rumberpon Island water, Cenderawasih Bay National Park, Indonesia. AACL Bioflux 11:19-28.
  • Bezerra RCA and Silva AC (2011) Biologia populacional da Piraúna Cephalopholis fulva desembarcada no Porto do Mucuripe, Fortaleza, Estado do Ceará. Rev Bras Eng Pesca 6:11-22.
  • Bright D, Reynolds A, Nguyen NH, Knuckey R, Knibb W and Elizur A (2016) A study into parental assignment of the communal spawning protogynous hermaphrodite, giant grouper (Epinephelus lanceolatus). Aquaculture 459:19-25.
  • Cai Y, Zhou Y, Xie R, Xie Z, Feng Y and Wang S (2012) A study on the karyotype, Ag-NORs and C-banding in Epinephelus bleekeri Journal of Fisheries of China 36:647-651.
  • Carpenter KE, Barber PH, Crandall ED, Ablan-Lagman MCA, Ambariyanto, Mahardika GN, Manjaji-Matsumoto MB, Juinio-Meñez MA, Santos MD, Starger CJ et al (2011) Comparative Phylogeography of the Coral Triangle and implications for marine management. J Mar Biol 2011:396982.
  • Chen Y, Rong S, Liu S, Zhang H and Pei M (1990) Analysis of the karyotype of Epinephelus sexfasciatus J Zhanjiang Fish College 2:62-68.
  • Cioffi MB and Bertollo LAC (2012) Chromosomal distribution and evolution of repetitive DNAs in fish. Genome Dyn 7:197-221.
  • Costa GWWF, Cioffi MB, Bertollo LAC and Molina WF (2013) Transposable elements in fish chromosomes: A study in the marine cobia species. Cytogenet Genome Res 141:126-132.
  • Costa GWWF, Cioffi MDB, Bertollo LAC and Molina WF (2015) Structurally complex organization of repetitive DNAs in the genome of cobia (Rachycentron canadum). Zebrafish 12:215-220.
  • Craig MT and Hastings PA (2007) A molecular phylogeny of the groupers of the subfamily Epinephelinae (Serranidae) with a revised classification of the Epinephelini. Ichthyol Res 54:1-17.
  • Craig MT, Mitcheson SY and Heemstra PC (2011) Groupers of the world - A field and Market Guide. 1st edition, CRC Press, Grahamstown, 424 pp.
  • Craig MT, Pondella DJ, Franck JPC and Hafner LC (2001) On the status of the serranid fish genus Epinephelus: evidence for paraphyly based on 16S rDNA sequence. Mol Phylogenet Evol 19:121-130.
  • Da Silva C, Hadji H, Ozouf-Costaz C, Nicaud S, Jaillon O, Weissenbrach J and Crollius HR (2002) Remarkable compartmentalization of transposable elements and pseudogenes in the heterochromatin of the Tetraodon nigroviridis genome. Proc Natl Acad Sci U S A 99:1636-1641.
  • Ellegren H (2010) Evolutionary stasis: the stable chromosomes of birds. Trends Ecol Evol 25:283-291.
  • Fischer C, Bouneau L, Coutenceau JP, Weissenbach J, Vollf JN and Ozouf-Costaz C (2004) Global heterochromatic colocalization of transposable elements with minisatellites in the compact genome of the pufferfish Tetraodon nigroviridis Gene 33:175-183.
  • Getlekha N, Molina WF, Cioffi MB, Yano CF, Maneechot N, Bertollo LAC, Supiwong W and Tanomtong A (2016a) Repetitive DNAs highlight the role of chromosomal fusions in the karyotypr evolution of Dascyllus species (Pomacentridae, Perciformes). Genetica 144:203-211.
  • Getlekha N, Cioffi MB, Yano CF, Maneechot N, Bertollo LAC, Supiwong W, Tanomtong A and Molina WF (2016b) Chromosome mapping of repetitive DNAs in sergeant major fishes (Abudefdufinae, Pomacentridae): a general view on the chromosomal conservatism of the genus. Genetica 144:567-576.
  • Giglio VJ, Bertoncini AA, Ferreira BP, Hostim-Silva M and Freitas MO (2014) Landings of goliath grouper, Epinephelus itajara in Brazil: despite prohibited over ten years, fishing continues. Nat Conserv 12:118-123.
  • Gold JR, Li YC, Shipley NS and Powers PK (1990) Improved methods for working with fish chromosomes with a review of metaphase chromosome banding. J Fish Biol 37:563-575.
  • Gonzalez ALD and Figueras AL (1990) Cytogenetic study of Centropristes ocyurus Jordan and Everman (Pisces: Serranide). An Inst Cienc Mar Limnol (Mexico) 17:55-62.
  • Gornung E (2013) Twenty years of physical mapping of major ribosomal rna genes across the teleosts: A review of research. Cytogenet Genome Res 141:90-102.
  • Heemstra PC, Anderson WD and Lobel PS (2002) Serranidae. In: Carpenter KE (ed) The living marine resources of the Western Central Atlantic. 5th edition. FAO, Rome, vol. 2, pp 1308-1369.
  • Hoffmann AA and Rieseberg LH (2008) Revisiting the impact of inversions in evolution: from population genetic markers to drivers of adaptive shifts and speciation? Annu Rev Ecol Evol Syst 39:21-42.
  • Howell WM and Black DA (1980) Controlled silver-staining of nucleolus organizer regions with a protective colloidal developer: A 1-step method. Experientia 36:1014-1015.
  • Kawakami K and Shima A (1999) Identification of the Tol2 transposase of the medaka fish Oryzias latipes that catalyzes excision of a nonautonomous Tol2 element in zebrafish Danio rerio Gene 240:239-244.
  • Kubat Z, Hobza R, Vyskot B and Kejnovsky E (2008) Microsatellite accumulation on the Y chromosome in Silene latifolia Genome 51:350-356.
  • Levan A, Fredga K and Sandberg A (1964) Nomenclature for centromeric position at chromosomes. Hereditas 52:201-220.
  • Li XQ and Peng YD (1994) Studies on karyotype of Epinephelus fasciatomaculosus and Epinephelus fasciatus JZFC 14:22-26.
  • Lima-Filho PA, Amorim KD, Cioffi MB, Bertollo LAC and Molina WF (2015) Chromosomal mapping of repetitive DNAs in Gobionellus oceanicus and G. stomatus (Gobiidae; Perciformes): A shared XX/XY system and an unusual distribution of 5S rDNA sites on the Y chromosome. Cytogenet Genome Res 144:333-40.
  • Liu M, and Sadovy I (2004) The influence of social factors on adult sex change and juvenile sexual differentiation in a diandric, protogynous epinepheline, Cephalopholis boenak (Pisces, Serranidae). Zool Lond 264:239-248.
  • Lucchini S, Nardi I, Barsacchi G, Batistoni R and Andronico F (1993) Molecular cytogenetics of the ribosomal (18S + 28S and 5S) DNA loci in primitive and advanced urodele amphibians. Genome 36:762-773.
  • Ma KY and Craig MT (2018) An inconvenient monophyly: an update on the taxonomy of the groupers (Epinephelidae). Copeia 106:443-456.
  • Ma KY, Craig MT, Choat JH and Herwerden VL (2016) The historical biogeography of groupers: Clade diversification patterns and processes. Mol Phylogenet Evol 100:21-30.
  • Magtoon W and Donsakul T (2008) Karyotype of five teleostean fishes from Thailand. In: Proceedings of the 34th Congress on Science and Technology of Thailand, Bangkok, p. BO113.
  • Martinez G, Thode G, Alvarez MC and López JR (1989) C-banding and Ag-NOR reveal heterogeneity among karyotypes of serranids (Perciformes). Cytobios 58:53-60.
  • Martinez-Brown JM, Mendel-Narváez JD, Hernández-Ibarra NK and Ortpiz Galindo JL (2012) Evidencia de la estabilidad cariotípica durante la divergencia evolutiva entre Paralabrax maculatofasciatus y P. nebulifer (Perciformes: serranidae). CICIMAR Oceánides 27:25-34.
  • Medrano L, Bernardi G, Couturier J and Dutrillaux B (1988) Chromosome banding and genome compartmentalization in fishes. Chromosoma 96:178-183.
  • Merritt JF and Lacks GD (1991) Karyology of the black sea bass, Centropristis striata J Elisha Mitchell Sci 107:75-78.
  • Minglan F, Wang J, Su YQ, Wang DX and Xu LN (2006) Study on the karyotype of Epinephelus moara Mar Sci 8:1-3.
  • Minglan G, Wang S, Su Y, Zhou Y, Liu M and Wang J (2014) Molecular cytogenetic analyses of Epinephelus bruneus and Epinephelus moara (Perciformes, Epinephelidae). Peer J 2:e412.
  • Mitcheson YS, Craig MT, Bertoncini AA, Carpenter KE, Cheung WWL, Choat JH, Cornish AS, Fennessy ST, Ferreira BP, Heentra PC et al (2013) Fishing groupers towards extinction: A global assessment of threats and extinction risks in a billion dollar fishery. Fish and Fisheries 14:119-136.
  • Molina WF, Maia-Lima FA and Affonso PRAM (2002) Divergence between karyotypical pattern and speciation events in Serranidae fish (Perciformes). Caryologia 55:299-305.
  • Molina WF, Alves DE, Araújo WC, Martinez PA, Silva MF and Costa GWWF (2010) Performance of human immunostimulating agents in the improvement of fish cytogenetic preparations. Genet Mol Res 9:1807-1814.
  • Molina WF, Martinez PA, Bertollo LAC and Bidau CJ (2014) Preferential accumulation of sex and bs chromosomes in biarmed karyotypes by meiotic drive and rates of chromosomal changes in fishes. An Acad Bras Cienc 4:1801-1812.
  • Motta-Neto CC, Cioffi MB, Bertollo LAC and Molina WF (2011) Extensive chromosomal homologies and evidence of karyotypic stasis in Atlantic grunts of the genus Haemulon (Perciformes). J Exp Mar Bio Ecol 401:75-79.
  • Motta-Neto CC, Cioffi MB, Costa GWWF, Amorim KDJ, Bertollo LAC, Artoni RF and Molina WF (2019) Overview on karyotype stasis in Atlantic grunts (Eupercaria, Haemulidae) and the evolutionary extensions for other marine fish groups. Front Mar Sci 6:628.
  • Natarajan R and Subrahmanyam KA (1974) Karyotype study of some teleosts from portonovo waters. Proc Natl Acad Sci India Sect B Biol Sci 79:173-196.
  • Nirchio M, Rossi AR, Foresti F and Oliveira C (2014) Chromosome evolution in fishes: A new challenging proposal from Neotropical species. Neotrop Ichthyol 12:761-770.
  • Noikotr K, Pinthong K, Tanomtong A, Sudmoon R, Chaveerach A and Tanee T (2014) Karyotype analysis of two groupers, Epinephelus species (Serranidae). Caryologia 67:63-65.
  • Paim FG, Almeida LAH, Affonso PRAM, Sobrinho-Scudeler PE, Oliveira C and Diniz D (2017) Chromosomal stasis in distinct families of marine Percomorpharia from South Atlantic. Comp Cytogenet 11:299-307.
  • Pendás AM, Moran P, Freije JP and Garcia-Vazquez E (1994) Chromosomal mapping and nucleotide sequence of two tandem repeats of Atlantic salmon 5S rDNA. Cytogenet Genome Res 67:31-36.
  • Pinkel D, Straume T and Gray JW (1986) Cytogenetic analysis using quantitative, high-sensitivity, fluorescence hybridization. Proc Natl Acad Sci U S A 83:2934-2938.
  • Pinthong K, Gomontean B, Kongim B, Khakhong S, Sriveerachai T and Supiwong W (2013) Cytogenetic comparison and chromosome localization of the nucleolar organizer region of four grouper genera (Pisces, Epinephelinae) from Thailand. Cytologia 78:223-234.
  • Pinthong K, Maneechot N, Tanomtong A, Supiwong W, Chanaboon T and Jangsuwan N (2015) The first karyological analysis and chromosomal characteristics of NORs of the cloudy grouper, Epinephelus erythrurus (Perciformes, Epinephelinae) in Thailand. Cytologia 80:279-286.
  • Pressley PH (1981) Pair formation and joint territoriality in a simultaneous hermaphrodite: the coral reef fish Serranus tigrinus Z Tierpsychol 56:33-46.
  • Renema W, Bellwood DR, Braga JC, Bromfield K, Hall R, Johnson KG, Lunt P, Meyer CP, McMonagle LB, Morley RJ et al (2008) Hopping hotspots: global shifts in marine biodiversity. Science 321:654-657.
  • Rimmer MA and Glamuzina B (2017) A review of grouper (Family Serranidae: Subfamily Epinephelinae) aquaculture from a sustainability science perspective. Rev Aquac 11:58-87.
  • Rishi KK and Haobam MS (1984) Karyological analysis of two marine fishes. Perspect. Cytology and Genetics 4:425-428.
  • Rodríguez-Daga R, Amores A and Thode G (1993) Karyotype and nucleolus organizer regiones in Epinephelus caninus (Pisces, Serranidae). Caryologia 46:71-76.
  • Rohde RA and Muller RA (2005) Cycles in fossil diversity. Nature 434:208-210.
  • Saad YM (2019) Analysis of 16S mitochondrial ribosomal DNA sequence variations and phylogenetic relations among some Serranidae fishes. South African J Anim Sci 49:80-89.
  • Santos MR, Katsuragawa M, Zani-Teixeira ML and Favero JMD (2019) Composition and distribution of Serranidae (Actinopterygii: Perciformes) larvae in the Southeastern Brazilian Bight. Braz J Oceanogr 67:e19264.
  • Schrader L, Schmitz J (2019) The impact of transposable elements in adaptive evolution. Mol Ecol 28:1537-1549.
  • Silva SAS, Lima-Filho PA, Motta-Neto CC, Costa GWWF, Cioffi MB, Bertollo LAC and Molina WF (2020) High chromosomal evolutionary dynamics in sleeper gobies (Eleotridae) and notes on disruptive biological factors in Gobiiformes karyotypes (Osteichthyes, Teleostei). Mar Life Sci Technol 3:293-302.
  • Sola L, Innocentiis S, Gornung E, Papalia S, Rossi AR, Marino G, Marco P and Cataudella S (2000) Cytogenetic analysis of Epinephelus marginatus (Pisces: Serranidae), with the chromosome localization of the 18S and 5S rRNA genes and of the (TTAGGG)(n) telomeric sequence. Mar Biol 137:47-51.
  • Sumner AT (1972) A simple technique for demonstrating centromeric heterochromatin. Exp Cell Res 75:304-306.
  • Suzuki H, Moriwaki K and Sakurai S (1996) Rat rDNA spacer sequences and chromosomal assignment of the genes to the extreme terminal region of chromosome 19. Cytogenet Cell Genet 72:1-4.
  • Takai A and Ojima Y (1995) A chromosomal study of a serranid fish, Chromileptes altivelis (Perciformes), using fin cultures. CIS Chrom Inf Serv 59:9-10.
  • Terencio ML, Schneider CH, Gross MC, Carmo E, Nogaroto V, Almeida MC, Artoni RF, Vicari MR and Feldberg E (2015) Repetitive sequences: The hidden diversity of heterochromatin in prochilodontid fish. Comp Cytogenet 9:465-481.
  • Tseng MC and Shih KW (2018) Application of karyotype and genetic characterization analyses for hybrid breeding of Epinephelus groupers. Intech open 3:37-51.
  • Vaini JO, Mota KG, Ojeda AP, Barreiros JP, Moreira RG and Hilsdorf AWS (2019) Development and characterization of 20 polymorphic microsatellite markers for Epinephelus marginatus (Lowe, 1834) (perciformes: Epinephelidae) using 454 pyrosequencing. Genet Mol Biol 42:74-79.
  • Volff JN, Körting C, Sweeney K and Schartl M (1999) The non-LTR retrotransposon Rex3 from the fish Xiphophorus is widespread among teleosts. Mol Biol Evol 16:1427-1438.
  • Volff JN, Körting C and Schartl M (2000) Multiple lineages of the non-LTR retrotransposon Rex1 with varying success in invading fish genomes. Mol Biol Evol 17:1673-1684.
  • Wang SF, Su YQ, Ding S, Cai Y and Wang J (2010) Cytogenetic analysis of orange-spotted grouper, Epinephelus coioides, using chromosome banding and fluorescence in situ hybridization. Hydrobiologia 638:1-10.
  • Wang SF, Cai Y, Qin YX, Zhou YC, Su YQ and Wang J (2012) Characterization of yellow grouper Epinephelus awoara (Serranidae) karyotype by chromosome bandings and fluorescence in situ hybridization. J Fish Biol 80:866-875.
  • Wang YX, Hongdong W, Haifa Z and Yongzhong L (2004) Karyotypes of Epinephelus coioides and Epinephelus akaara J Zou 24:4-8.
  • White TJ, Bruns S, Lee S and Taylor J (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis MA, Gelfand DH, Sninsky JJ and White TJ (eds). PCR Protocols a guide to methods and applications. 1st edition. Academic Press, London, pp 315-322.
  • Wilson MEJ and Rosen BR (1998) Implications of paucity of corals in the Paleogene of SE Asia: Plate tectonics or centre of origin. In: Hall R and Holloway JD (eds). Biogeography and geological evolution of SE Asia. Backhuys Publishers, Netherlands, pp. 165-195.
  • Xiao Y, Xiao Z, Ma D, Zhao C, Liu L, Wu H, Nie W, Xiao S, Liu J, Li J et al (2020) Chromosome-level genome reveals the origin of neo-Y chromosome in the male barred knifejaw Oplegnathus fasciatus iScience 23:e101039.
  • Zhang D, Guo L, Guo H, Zhu KC, Li SQ, Zhang Y, Zang N, Liu BS, Jiang SG and Li JT (2019) Chromosome-level genome assembly of golden pompano (Trachinotus ovatus) in the family Carangidae. Sci Data 6:216.
  • Zheng L, Liu CW and Li CL (2005) Studies on the karyotype of four groupers. Mar Biol 29:51-55.
  • Zou JX, Yu QX and Zhou F (2005) The karyotypes C-bands patterns and Ag-NORs of Epinephelus malabaricus SCImago 29:33-37.

Internet Resources

Associate Editor:

Marcelo Guerra

Publication Dates

  • Publication in this collection
    15 Nov 2021
  • Date of issue
    2021

History

  • Received
    26 Apr 2021
  • Accepted
    15 Sept 2021
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