Phylogenetic and Phylogeographic Relationships among Lineages of the Armored Catfish Ancistrus Kner, 1854 (Loricariidae: Ancistrini), from the Amazon and Paraguay Basins
Received Date: Apr 11, 2018 / Accepted Date: Apr 17, 2018 / Published Date: Apr 20, 2018
Ancistrus is one of the most diverse genera in the Ancistrini tribe, with 64 nominal species. The group is characterized by high cytogenetic variability; the diploid number of chromosomes ranges from 2n = 34 to 2n = 54. Ancistrus is widely distributed in the basins of the Uruguay, Paraguay, and Amazonian rivers; the latter two regions show the greatest diversity of Ancistrus species and karyotypes. Despite these characteristics, the group includes species for which taxonomic identification is difficult, and phylogenetic relationships and phylogeographic patterns, especially in the Paraguay and Amazon basins, have not yet been revealed. In this study, we determined the phylogenetic and phylogeographic relationships among the Ancistrus lineages in these regions. In particular, 93 concatenated sequences of mitochondrial ATPase 6/8 and COI as well as nuclear Rag2 were used for a phylogenetic analysis, and ATPase 6/8 were used for a phylogeographic analysis. The topology generated by the Bayesian method included three distinct clades subdivided into 21 groups. The clades indicated a monophyletic relationship among the lineages from the Amazon and Paraguay basins. The 21 groups had a high average genetic distance (8.4%) and were structured genetically. In the haplotype network, eight large groups were observed, seven belonging to the Paraguay basin and one corresponding to the Amazon basin, and no haplotypes were shared between the two basins. These results indicate that Ancistrus lineages form a monophyletic unit in the Paraguay and Amazon basins, and these lineages have a high level of divergence and genetic isolation. These results corroborate the existence of cryptic species in the region and emphasize the need for a taxonomic revision of the genus in these basins.
Keywords: Catfish; Hypostominae; Genetic structure; Distancebased tree; Taxonomy
The Amazon and Paraguay basins are the main water tributaries of Brazil and are responsible for a significant portion of the hydrological drainage of South America [1,2]. These flood regions also harbor great diversity and rich ichthyology, sheltering species with different trophic structures, sizes, and patterns of migration and locomotion [3,4].
The Loricariidae superfamily represents one of the largest groups among the neotropical species observed in most Brazilian rivers, with 1078 estimated species and 931 nominal species [5-7]. The genus Ancistrus includes 69 nominal species; it is the most diverse group within Ancistrini and the second most species-rich genus in Loricariidae [5,8,9]. The genus is characterized by the absence of plates and odontodes on the leading edge of the snout and the presence of tentacles and well-developed protractile interopercular odontodes .
The Amazon and Paraguay basins in the states of Amazonas and Mato Grosso, harbor the largest number and greatest diversity of Ancistrus species . Several species in the genus have already been described in this region, and others are in the process of being identified. Based on cytogenetical analyses, these species show substantial variation in the diploid number (2n = 34 to 2n = 54), unlike the species found in the Paraná river basin, which do not show any variation (2n = 50) . Species from the Amazon and Paraguay basins also have other interesting cytogenetics features, including the presence of sex chromosome systems (ZZ/ZW and XX/XY), polymorphisms in the nucleolar organizing region, and the occurrence of rearrangements involving pericentric and paracentric inversions [12-23].
Molecular tools, including the sequencing of multiple genes, have helped to identify phylogenetic and phylogeographic patterns of fish species [24-28]. Recent molecular and cytogenetic analyses have enabled the discrimination of cryptic species in the genus Ancistrus and have revealed the higth diversity of this genus in the Amazon, Paraguay, and Paraná basins [27,29]. Despite an increase in cytogenetic studies of this group, taxonomic assignments, phylogenetic relationships, and species distributions in the genus remain unclear, particularly in the Amazon and Paraguay basins [30,31]. In this study, we analyzed the concatenated sequences of nuclear and mitochondrial markers to identify the phylogenetic relationships and phylogeographic patterns of Ancistrus lineages from the Amazon and Paraguay basins.
Materials and Methods
Sample collection and DNA amplification
Samples were obtained from 146 Ancistrus spp. in 23 populations, including eight populations from the Amazon basin and 15 from the Paraguay basin (Figure 1). All individuals had known diploid numbers, and Hypostomus commersoni and Rhamdia quelen were used as outgroups. The specimens were deposited in the Núcleo de Pesquisas em Limnologia, Ictiologia e Aquicultura (NUPELIA), and the Instituto Nacional de Pesquisas da Amazônia (INPA). Specimen collection was authorized by the Brazilian Environment Ministry though its Biodiversity Information and Authorization System (SISBIO), under license number 42144-1, and the protocols used in this study were submitted to the Ethics Committee on the Use of Animals in Research (CEUA) of the Universidade Estadual Paulista (UNESP) and approved under protocol number 7913. A total of 91 sequences from different Ancistrus species were analyzed; 34 of these sequences represented the Amazon basin, and 112 represented the Paraguay basin. DNA was extracted from the muscles and flippers using the phenol-chloroformisoamyl alcohol technique  and the NucleoSpin® Tissue Kit (Macherey-Nagel, Duren, Germany).
Figure 1: Map of the Amazon and Paraguay hydrographic systems showing the collection points (colorful circles). Amazon basin: A (Catalão), B (Igarapé Dimeni), C (Igarapé Trombetas), D (Igarapé Barretinho), E (Igarapé Mocoari), F (Juma river), G (Matrinxã stream) and H (Preto river). Paraguay basin: I (Coxipó stream), J (Rio do Peixe), K (Soberbo stream), L (Mutuca stream), M (Sagradouro stream), N (Pari river), O (Flecha stream), P (Baia do Arrombado), Q (Santa Cruz stream), R (Cupim stream), S (Macaco stream), T (Tamanduá stream), U (Vermelho stream), V (Tangará stream) and X (Currupira stream). The red shading delimits the Amazonian hydrographic region and the blue shading delimits the Paraguay hydrographic region.
The mitochondrial genes ATP synthase (ATPase) subunits 6 and 8 and cytochrome oxidase subunit I (COI) and the nuclear gene Rag2 were analyzed (Table 1). Polymerase chain reaction (PCR) was conducted using a 13.5 μL solution containing 6.25 μL of PCR Mix (Qiagen, Hilden, Germany), 5.25 μL of Milli Q water (Millipore, Billerica, MA, USA), 0.5 μL of primer F (10 μM), 0.5 μL of primer R (10 μM), and 1.0 μL of template DNA (200 ng). PCR was performed using a thermocycler (Eppendorf Mastercycler) and consisted of an initial cycle of denaturation at 94°C for 40 s, followed by 35 cycles of 94°C for 30 s, annealing temperature (Table 1) for 40 s, and chain extension at 68°C, and a final extension at 72°C for 5 min. For the sequence analysis, the amplified DNA was purified with the EXOSAP enzyme and subsequently sent for sequencing (MacroGen, Seoul, Korea).
|Primers||Sequences of primers||Ta (ºC)||References|
|L8331 – F (ATPase)||AA GCR TYR GCC TTT TAA GC||55||Perdices et al. 2002|
|H92326 – R (ATPase)||GTT AGT GGT CAK GGG CTT GGR TC|
|VF1 (COI)||TTC TCA ACC AAC CAC AAA GAC ATT GG||50||Ivanova et al. 2007|
|VR1 (COI)||TAG ACT TCT GGG TGG-3|
|Rag2 F||TGY TAT CTC CCA CCT CTG CGY T||55||Hardman 2004|
|Rag2 R||TCA TCC TCC TCA TCK TCC TCW TT|
Table 1: Sequences of primers used in the samples amplification. Ta: Annealing temperature; F: Forward; R: Reverse.
Phylogenetic, phylogeographic, and population analyses
The sequences were aligned using ClustalW in BioEdit Sequence Alignment Editor v184.108.40.206 [33-35] and DAMBE . For phylogenetic analyses, genetic distances were estimated separately for each data set (ATPase, COI, and Rag2) using the neighbor-joining (NJ) method implemented in MEGA v.6 . Concatenated sequences were obtained using Geneious , and a Bayesian Markov chain Monte Carlo (MCMC) approach was utilized to estimate tree topologies using MrBayes v. 3.1.2 . Four simultaneous MCMC analyses were run for 2 million generations under the general time-reversible (GTR) model of evolution, with a sampling frequency of 100 generations and a heating temperature of 0.2. Log-likelihood stability was reached after approximately 80,000 generations (excluding the first 80,000 trees). The remaining trees were used to compute a 50% majority-rule consensus tree, and the posterior probability values were calculated to determine the level of support for the Bayesian topology.
Phylogeographic and population analyses were performed using the mitochondrial gene ATPase. Haplotype and nucleotide diversity (π) were calculated using DNASP v.5.10.01 . The median-joining algorithm in Network 220.127.116.11 (fluxus-engineering) was used to examine the relationships among haplotypes. Population structure and genetic variation (FST and AMOVA) were characterized using Arlequin v.3.5 .
In total, 146 sequences were obtained (ATPase, COI, and Rag2). The ATPase gene was 868 bp, with a nucleotide composition of 28.8% (T), 29.1% (C), 30.1% (A), and 12% (G). The COI gene was 675 bp with a nucleotide composition of 29.4% (T), 24.2% (C), 26.9% (A), and 19.5% (G). The Rag2 nuclear gene was 894 bp with a nucleotide composition of 2.4% (T), 24.1% (C), 26.9% (A), and 24.2% (G).
The concatenated sequence analysis included 91 sequences, of which 64 corresponded to specimens from the Paraguay basin and 27 to specimens from the Amazon basin. The sequences were 3623 bp in total, with a mean nucleotide composition of 26.9% (T), 25.4% (C), 28.5% (A), and 19.2% (G). There were 1825 variable sites and 918 conserved sites.
Independent analyses of mitochondrial and nuclear genes generated topologies similar to those observed in the analysis of concatenated sequences.
Using concatenated sequence data, three clades (I, II, and III) were observed, and these were divided into 21 groups (G1–G21) (Figure 2). Clades I and III were formed exclusively by samples from the Paraguay river basin, and clade II was formed mostly by samples from the Amazon basin, except for three groups that belonged to two localities in the Paraguay basin (Chapada dos Guimarães and Poconé) (Figure 2A and Supplementary Figure S1). The three groups were wellsupported, with a posterior probability value of 100%, and clades I and II formed a monophyletic unit (Figure 2B). Clade III, formed by samples from Cuiabá, Cáceres, and Chapada dos Guimarães (Paraguay basin), exhibited a basal position in the topology when compared with clades I and II.
The smaller groups (G1-G21) in the topology were consistent with different collection points within each of the studied basins, i.e., G1 to G10 and G19 to G21 corresponded to points in the Paraguay basin and G11 to G18 corresponded to points in the Amazon basin. The diploid number for individuals in each group was determined (Table 2). The mean genetic distance (p distance) was 0.4% within groups and 8.4% between groups.
|Group||Diploid number||Collect points||Basin|
|G 1||2n=44||Flecha stream||Paraguay|
|G 2||2n=54||Pari stream||Paraguay|
|G 3||2n=42||Vermelho river||Paraguay|
|G 4||2n=50||Cupim/Macaco stream||Paraguay|
|G 5||2n=44||Tamanduá stream||Paraguay|
|G 6||2n=44||Currupira stream||Paraguay|
|G 7||2n=52||Tangará stream||Paraguay|
|G 8||2n=54||Peixe stream||Paraguay|
|G 9||2n=54||Pari/Mutuca stream||Paraguay|
|G 10||2n=54||Mutuca stream||Paraguay|
|G 11||2n=50||Matrinxã river (Ancistrus trombador)||Amazon|
|G 12||2n=50||Preto river (Ancistrus trombador)||Amazon|
|G 15||2n=38||Trombetas stream||Amazon|
|G 16||2n=46||Igarapé Macoari (Ancistrus maximus)||Amazon|
|G 17||2n=52||Iguarapé Dimona (Ancistrus dolichopterus)||Amazon|
|G 18||2n=46||Iguarapé Barritinho (Ancistrus dubius)||Amazon|
|G 19||2n=42||Sangradouro/Santa Cruz/Flecha stream||Paraguay|
|G 20||2n=54||Soberbo/Peixe stream||Paraguay|
|G 21||2n=54||Soberbo/Coxipo stream||Paraguay|
Table 2: Relation of groups (G 1 to G 21) with diploid number and collection points.
Phylogeographic and population analyses
Using mitochondrial ATPase gene sequences, a network of 60 haplotypes formed by individuals from the two basins (Amazon and Paraguay) was generated (Figure 3). The most frequent haplotype (H_3) was detected in 14 individuals from the Paraguay basin. This haplotype was shared by samples from three collection points in the region of Chapada dos Guimarães (Coxipó stream, Peixe river, and Mutuca stream) with a diploid number of 2n = 54. The other most frequent haplotypes were H_13 of the Amazon basin, detected in ten individuals (2n = 50), H_4 of the Paraguay basin, detected in eight individuals (Serra de São Vicente region) (2n = 50), and H_5 of the Paraguay basin, detected in eight individuals (Cáceres region) (2n = 44).
Haplotype sharing was not observed among individuals from the Amazon and Paraguay basins; accordingly, both locations exhibited a high level of isolation in the network, with the exception of haplotype H_32, which was allocated to the Amazon basin and included samples from the Poconé region (Paraguay basin), with a diploid number of 2n = 34. In the Paraguay basin network, there was separation among the Chapada dos Guimarães, Serra de São Vicente, and Cáceres regions, with no haplotype sharing among these regions (Figure 3).
FST values were obtained for all 21 groups identified in the phylogenetic tree (G1-G21) to investigate genetic structure. The FST indexes for populations in both the Amazon and Paraguay basins varied widely from 0 to 1 (Supplementary Table 1), and these values were statistically significant (p < 0.05) for most of the groups in both basins.
An analysis of molecular variation (AMOVA) indicated that there is differentiation among groups I, II, and III, and these groups correspond to the three clades observed in the phylogenetic tree (I, II, and III). AMOVA indicated a total genetic variance of 0.49, and negative values for the variance between groups, with the greatest proportion of total variance explained by variation within three groups, 0.33% and 67.16%, respectively (Supplementary Table 1). In addition, the observed differentiation among groups was significant (p < 0.05).
The genealogy generated using the concatenated sequences of three genes (ATPase, COI, and Rag2) exhibited a topology similar to that observed using mitochondrial genes (ATPase and COI) independently. These topologies offered a higher resolution than that of topologies generated using the nuclear gene Rag2. This difference can be explained by differences in mutation rates, which are lower for nuclear genes than for mitochondrial genes .
In the topology inferred from the concatenated sequences, three clades (I, II, and III) were clearly detected. Clades I and II formed a monophyletic unit. Clade I was formed exclusively by samples from the Paraguayan basin, while clade II was formed mostly by samples from the Amazon basin. It is possible to demonstrate the occurrence of monophyly among the Ancistrus strains present in the two basins, a condition already described for other traditional groups of Siluriformes, which also represent monophyletic groups [28,43-45]. Phylogenies inferred from multiple gene sequences also indicate that the Loricariidae family and some subfamilies (Hypostominae) are monophyletic groups [46,47]. Other studies of loricariids based on osteological and molecular characters suggest that Ancistrus is a monophyletic group within the Ancistrini tribe [48,49]. Thus, our results obtained using concatenated sequences corroborate the hypothesis of monophyly for the group.
Clade III exhibited a basal position in the phylogeny. This clade consisted exclusively of representatives of the Paraguay basin and was formed by groups G19, G20, and G21; individuals in the last two groups have 2n = 54 chromosomes. In Loricariidae, species with a diploid number 2n = 54 and metacentric and submetacentric chromosomes are considered basal [20,50-53]. The basal position of the clade with 2n = 54 chromosomes reinforces the hypothesis that this diploid number is a plesiomorphic characteristic for Ancistrus .
The groups that form clades I and II in the topology were characterized by a wide variety of karyotypes; in clade I, diploid numbers of chromosomes ranged from 2n = 42 to 2n = 54, and in clade II, they ranged from 2n = 34 to 2n = 54. The great variation in diploid numbers is an interesting feature of Ancistrus lineages from the Paraguay and Amazon basins [13,16,17,18,20]. This large karyotypic variability may be a reflection of the high genetic distance observed among the lineages and groups in this study.
Recently, Prizon et al.  detected five lineages of Ancistrus in the Paraná basin using chromosomal and molecular data. These lineages do not constitute monophyletic groups in the topology and have the same diploid number (2n = 50). These results indicate that genetic and chromosomal variation in the group may be related to the geographical distribution of taxa in the studied basins, and the substantial genetic and chromosomal variation observed in the Amazon and Paraguay basins can be attributed to the high isolation among the Ancistrus lineages in these regions.
The haplotype network results were consistent with the results of the phylogenetic analysis, indicating clear separation and a high degree of isolation between Ancistrus lineages from the Paraguay and Amazon basins. The network showed separation among the three major groups observed in the phylogeny, clades I, II, and III. The haplotype subnetwork corresponding to clade III in the phylogeny was composed of the haplotype H_3 (2n = 54), which was the most frequent haplotype in the network and can be considered the ancestral haplotype for the group, reinforcing the hypothesis that the lineages belonging to clade III are the basal lineages for these localities.
The high genetic distances, high degree of isolation according to both the phylogeny and the haplotype network, genetic structure (as determined by FST and AMOVA), and extensive karyotype variation for the Ancistrus lineages provide insight into the biological, ethological, and biogeographic aspects of the group. Fish from the Ancistrus group use microhabitats in their life cycle. In this way, they establish territories that consequently reduce their vagility [54,55]. These characteristics may favor the emergence of isolation mechanisms or barriers to gene flow, which contribute to the occurrence of microallopatric speciation . Such events have already been characterized in other fish species, such as African cichlids, which are endemic to the great lakes of East Africa and possess a high degree of genetic and geographic isolation [57,58].
Geomorphological aspects of the region may have contributed to the observed isolation among lineages. The regions of Serra de São Vicente and Chapada dos Guimarães have rugged relief features, with steep slopes [59,60]. These characteristics are associated with a high level of biological diversity in various ecosystems [61,62] and may explain, in part, the chromosomal and genetic differentiation of Ancistrus lineages in this region.
In conclusion, our molecular data suggest that the Ancistrus lineages form a monophyletic unit in the Paraguayan and Amazonian basins and the diploid number of 54 is a plesiomorphic character for the group. The high genetic distances and genetic structure may reflect the history of physical and biological isolation of the studied Ancistrus lineages.
The authors are grateful to Fundação de Apoio à Pesquisa do Estado de São Paulo (The São Paulo State Research Foundation) (FAPESP - 2013/17826-9 and 2013/17211-4) for financial support. Instituto Chico mendes de Conservação da Biodiversidade (ICMBIO) for providing the collection license (42144-1). The authors thank Eliana Feldberg and Maelin Silva (Instituto Nacional de Pesquisas da Amazônia – INPA) for providing samples of Ancistrus from the Amazon basin, Dr. Josi Margarete Ponzetto do Nascimento for intellectual communication and Bioedit® for helping with the English language.
- Molinier M, Cudo RJ, Guimaräes V (1992) Availability of water in the Amazon Basin. In: FOREST 92: Environmental Studies in Tropical Rain Forests. Rio de Janeiro.
- ANA - National Water Agency (2004) Implementation of integrated watershed management practices for the Pantanal and Upper Paraguay Basin: strategic action programs for integrated management of the Pantanal and Upper Paraguay Basin. GEF. Final report. Brasília.
- Muniz CC (2010) Evaluation of the role of flood pulse on the richness and biodiversity of fish in a flooded environment in the Caiçara bays system, northern portion of the Matogrossense Pantanal, upper Paraguay. Federal University of São Carlos, SP.
- Welcomme RL (2000) Fish biodiversity in floodplain and their associated Rivers. In Gopal B, Junk W Davis JA (eds). Biodiversity in wetland assessment, function and conservation Netherlands: Backhuys publishers 61-87.
- Ferraris Jr CJ (2008) Checklist of catfishes, recent and fossil (Osteichthyes: Siluriformes), and catalogue of Siluriform primary types. Zootaxa 1418: 1-628.
- Delapieve ML (2014) Filogenia de Hypoptopomatini (Loricariidae: Hypoptopomatinae). Porto Alegre, RS: Pontifícia Universidade Católica do Rio Grande do Sul, Porto Alegre.
- Eschmeyer WN (2017) Catalog of fishes. Electronic publication in “World Wide Web”. http://www.collections.calacademy.org/ich/
- Bifi AG, Pavanelli CS, Zawadzki CH (2009) Three new species of Ancistrus Kner, 1854 (Siluriformes: Loricariidae) from the Rio Iguaçu basin, Paraná State, Brazil. Zootaxa 2275: 41-59.
- Froese R, D Pauly (2017) FishBase. Available: http://www.fishbase.se/summary/Loricariidae.html
- Sabaj MH, Armbruster JW, Page LM (1999) Spawning in Ancistrus with comments on the evolution of snout tentacles as a novel reproductive strategy: larval mimicry. Ichthyol Explor Freshwaters 10: 217-229.
- Fisch-Muller S (2003) Subfamily Ancistrinae. In Check list of the freshwater fishes of South and Central America. Porto Alegre: EDIPUCRS 729
- Prizon AC, Borin-Carvalho LA, Bruschi DP, Ribeiro MO, Barbosa LM, et al. (2016) Cytogenetic data on Ancistrus sp. (Siluriformes, Loricariidae) of the Paraguay River basin (MS) sheds light on intrageneric karyotype diversification. Comparat Cytogenet 10: 625-636.
- Alves AL, Oliveira C, Foresti F (2003) Karyotype variability in eight species of the subfamilies Loricariidae and Ancistrinae (Teleostei, Siluriformes, Loricariidae). Caryologia 56: 57-63.
- Mariotto S, Artoni RF, Miyazawa CS (2014) Occurence of sexual chromosome, of the type ZZ/ZW, in Ancistrus cf. dubius (Loricariidae, Ancistrinae) of the Paraguay River Basin, MatoGrosso, Brazil. Caryologia 57: 327-331.
- Souza ACP, Nascimento AL, Carvalho JR, Barros RMS, Feldberg E, et al. (2004) Karyotypic analysis of Baryancistrus aff. niveatus (Ancistrinae, Loricariidae) by C-banding, Ag-NOR, CMA3, DAPI and FISH. Caryologia 57: 219-223.
- Alves AL, Oliveira C, Foresti F (2005) Comparative cytogenetic analysis of eleven species of subfamilies Neoplecostominae and Hypostominae (Siluriformes: Loricariidae). Genetica 124: 127-136.
- Mariotto S, Miyazawa CS (2006) Ancistrus cf. dubius (Siluriformes, Ancistrinae), a complex of species. 1. Chromosomal characterization of four populations and occurrence of sex chromosomes of the type XX/XY, in the Pantanal Basin of Mato Grosso, Brazil. Caryologia 59: 299-304.
- de Oliveira RR, Feldberg E, Anjos MB, Zuanon J (2007) Karyotype characterization and ZZ/ZW sex chromosome heteromorphism in two of the catfish genus Ancistrus Kner, 1854 (Siluriformes: Loricariidae). Neotrop Ichthyol 5: 301-306.
- de Oliveira RR, Feldberg E, Anjos MB, Zuanon J (2008) Occurrence of multiple sexual chromosomes (XX/XY1Y2 and Z1Z1Z2Z2/Z1Z2W1W2) in catfishes of the genus Ancistrus (Siluriformes: Loricariidae) from the Amazon basin. Genetica 134: 243-249
- Mariotto S, Centofante L, Miyazawa CS, Bertollo LAC, Moreira-Filho O (2009) Chromosome polymorphism in Ancistrus cuiabae Knaack, 1999 (Siluriformes: Loricariidae: Ancistrini). Neotrop Ichthyol 7: 595-600.
- Mariotto S, Centofante L, Vicari MR, Artoni RF, Moreira-Filho O (2011) Chromosomal diversification in ribosomal DNA sites in Ancistrus Kner, 1854 (Loricariidae, Ancistrini) from three hydrographic basins of Mato Grosso, Brazil. Comp Cytogenet 5: 289-300.
- Mariotto S, Centofante L, Moreira-Filho O (2013) Diversity and chromosomal evolution in the genus Ancistrus Kner, 1854 (Loricariidae: Ancistrini) from three hydrographic basins of Mato Grosso State, Brazil. Neotrop Ichthyol 11: 125-131.
- Ribeiro MO, Noleto RB, Lorscheider CA, Porto FE, Prizon AC, et al. (2015) Cytogenetic description of Ancistrus abilhoai (Siluriformes: Loricariidae) from Iguaçu River basin, southern Brazil. Genet Mol Res 14: 4051-4057.
- Favarato RM, da Silva M, de Oliveira RR, Artoni RF, Feldberg E, et al. (2016) Cytogenetic Diversity and the Evolutionary Dynamics of rDNA Genes and Telomeric Sequences in the Ancistrus Genus (Loricariidae: Ancistrini). Zebrafish 13: 103-111.
- Yang Z, Rannala B (2010) Bayesian species delimitation using multilocus sequence data. Proc Natl Acad Sci USA 107: 9264-9269.
- Habib M, Lakra WS, Mohindra V, Lal KK, Punia P, et al. (2012) Assessment of ATPase 8 and ATPase 6 mtDNA Sequences in Genetic Diversity Studies of Channa Marulius (Channidae: Perciformes). Proceedings of the National Academy of Sciences, India Section B: Biol Sci 82: 497-501.
- Borba RS, Zawadzki CH, Oliveira C, Perdices P, Parise-Maltempi PP, et al. (2013) Phylogeography of Hypostomus strigaticeps (Osteichthyes: Loricariidae) inferred by mitochondrial DNA reveals its distribution in the Upper Paraná River basin. Neotrop Ichytiol 11: 111-116.
- Ponzetto JM, Alves AL, Varela ES, Villela LCV, Caetano AR, et al. (2017) Molecular Phylogeny Inferred from the Concatenated Genes of Two Neotropical Catfish Species and Implications for Conservation. J Phylogenet Evol Biol 05: 176-184.
- Prizon AC, Bruschi DP, Borin-Carvalho LA, Cius A, Barbosa LM, et al. (2017) Hidden Diversity in the Populations of the Armored Catﬁsh Ancistrus Kner, 1854 (Loricariidae, Hypostominae) from the Paraná River Basin Revealed by Molecular and Cytogenetic Data. Front Genet 8: 185.
- Reis RE, Kullander SO, Ferraris C (2003) Check List of the Freshwater Fishes of South and Central America (CLOFFSCA), Porto Alegre, EDIPUCRS.
- Britski HA, Silimon KZS, Lopes BS (2007) Manual de identificação de peixes do Pantanal Mato-grossense. SPI. Corumbá, MS: EMBRAPA.
- Sambrook J, Russel DW (2001) Molecular cloning. A laboratory manual. New York: Spring Harbor Laboratory Press. Third Edition.
- Perdices A, Cunha C, Coelho MM (2004) Phylogenetic structure of Zacco platypus (Teleostei, Cyprinidae) populations on the upper and middle Chang Jiang (=Yangtze) drainage inferred from cytochrome b sequence. Mol Phylogenet Evol 31: 192-203.
- Ivanova NV, Zemlak TS, Hanner RH, Hebert PDN (2007). Universal primer cocktails for fish DNA barcoding. Mol Ecol Notes 7: 544-548.
- Hall TA (1999). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids 41: 95-98.
- Xia X, Xie Z (2001) DAMBE: Data analysis in molecular biology and evolution. J Hered 92: 371-373.
- Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: Molecular evolutionary genetics analysis version 6. Mol Biol Evol 2725-2729.
- Kearse M, Moir R, Wilson A, (2012). Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 28: 1647-1649.
- Huelsenbenck JP, Ronquist FR (2001) MrBayes: Bayesian inference of phylogeny, Bioinformatics 17: 754-755.
- Librado P, Rozas J (2009). DnaSP v5: A software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25: 1451-1452.
- Excoffier L, Laval G, Schneider S (2005) ARLEQUIN: Ver 3.0. An integrated software package for population genetic data analysis. Evol Bioinformatics 1: 47-50.
- Avise JC (2000) Phylogeography: The History and Formation of Species, first ed. Harvard University Press, Cambridge.
- de Pinna MCC (1998) Phylogenetic relationships of Neotropical Siluriformes (Teleostei: Ostariophysi); historical overview and synthesis of hypothesis. Pp: 279- 330. In: Malabarba LR, Reis RE, Vari RP, Lucena ZM, Lucena CAS (Eds.). Phylogeny and Classification of Neotropical Fishes. Edipucrs, Porto Alegre, Brazil.
- Hardman M, Hardman LM (2008) The relative importance of body size and paleoclimatic change as explanatory variables influencing lineage diversification rate: an evolutionary analysis of bullhead catfishes (Siluriformes: Ictaluridae) Syst Biol 57: 116-130.
- Villela LCV, Alves AL, Varela ES, Yamagishi MEB, Giachetto PF, et al. (2017) Complete mitochondrial genome from South American catfish Pseudoplatystoma reticulatum (Eigenmann & Eigenmann) and its impact in Siluriformes phylogenetic tree. Genetica 145: 51-66.
- Cramer CA, Bonatto SL, Reis RE (2011) Molecular phylogeny of the Neoplecostominae and Hypoptopomatinae (Siluriformes: Loricariidae) using multiple genes. Mol Phylogenet Evol 59: 43-52.
- Lujan NK, Armbruster JW, Lovejoy NK, López-Frenandez H (2015) Multilocus molecular phylogeny of the suckermouth armored catfishes (Siluriformes: Loricariidae) with a focus on subfamily Hypostominae. Mol Phylogenet Evol 82.
- Schaefer SA (1987) Osteology of Hypostomus plecostomus (Linnaeus) with a phylogenetic analysis of the loricariid subfamilies (Pisces: Siluroidei). Natural History Museum of Los Angeles County 394: 1-31.
- Montoya-Burgos JI, Muller S, Weber C, Pawlowski J (1998) Phylogenetic relationships of the Loricariidae (Siluriformes) based on mitochondrial rRNA gene sequences. In Phylogeny and Classification of Neotropical Fishes, edited by Malabarba LR, Reis RE, Vari RP, Lucena ZM, Lucena CAS Edipucrs, Porto Alegre, RS.
- Artoni RF, Bertollo LAC (1996) Cytogenetic studies on Hypostominae (Pisces, Siluriformes, Loricariidae). Considerations on karyotype evolution in the genus Hypostomus. Caryologia 49: 81-90.
- Artoni RF, Bertollo LAC (2001) Trends in the karyotype evolution of Loricariidae fish (Siluriformes). Hereditas 134: 201-210.
- Kavalco KF, Pazza R, Bertollo LAC, Moreira-Filho O (2005) Karyotypic diversity and evolution of Loricariidae (Pisces, Siluriformes). Heredity 94: 180-186.
- de Oliveira RR, Feldberg E, Anjos MB, Zuanon J (2009) Mechanisms of chromosomal evolution and its possible relation to natural history characteristics in Ancistrus catfishes (Siluriformes: Loricariidae). J Fish Biol 75: 2209-2225.
- de Oliveira RR, Feldberg E, Anjos MB, Zuanon J (2009) Mechanisms of chromosomal evolution and its possible relation to natural history characteristics in Ancistrus catfishes (Siluriformes: Loricariidae). J Fish Biol 75: 2209-2225.
- Buck S, Sazima I (1995). An assemblage of mailed catﬁshes (Loricariidae) in south eastern Brazil: distribution, activity, and feeding. Ichthyol Explor Freshwaters 6: 325-332.
- Futuyma DJ (1997) Evolutionary Biology. Sinauer, New York.
- Lewis DSC (1982) A revision of the genus Labidochromis (Teleostei: Cichlidae) from Lake Malawi. Zool J Linn Soc 75: 189-265.
- Lowe-McConnell RH (1999) Estudos ecológicos de comunidades de peixes tropicais. EDUSP, São Paulo.
- Ross JLS, Santos LM (1982) Geomorfologia. In: MME. Projeto RADAMBRASIL. 6 Cuiabá. Rio de Janeiro, MME.
- Moreira AAN (1977) Relevo. In: IBGE. Geografia do Brasil, Região Centro-Oeste 4: 1-34.
- Shugart HH (1984) A theory of forest dynamics: the ecological implications of forest succession models. Springer-Verlag, New York.
- Richards PW (1996) The tropical rainforest. 2th ed. Cambridge University Press, Cambridge.
Citation: de Borba RS, Mariotto S, Centofante L, Parise-Maltempi PP (2018) Phylogenetic and Phylogeographic Relationships among Lineages of the Armored Catfish Ancistrus Kner, 1854 (Loricariidae: Ancistrini), from the Amazon and Paraguay Basins. J Phylogenetics Evol Biol 6:199. DOI: 10.4172/2329-9002.1000199
Copyright: © 2018 de Borba RS, et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
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