Complete mitochondrial genome of
            <i>Parachromis managuensis</i>
            (Perciformes: Cichlidae)

Liu, Lihui; He, Jinzhao; Li, Ningqiu; Fu, Xiaozhe; Lin, Qiang; Shi, Chao; Lv, Yejian; Zhang, Zhixin

doi:10.3109/19401736.2015.1038791

Cited by 2 publications

(2 citation statements)

References 6 publications

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“…The overall base composition of the mitochondrial genome is highly similar between these two species: A = 4,555 (27.47%), G = 2,599 (15.67%), T = 4,414 (26.62%) in S. robustus and A = 4,555 (27.47%), G = 2,624 (15.83%), T = 4,409 (26.59%) in B. nototaenia , whereas C = 4,993 (30.11%) in both species. However, the C content is relatively lower when compared with P. managuensis (31.0%) (Liu et al, 2016). An illustration of the complete mitochondrial genome of S. robustus and B. nototaenia is shown in Figure 1.…”

Section: Resultsmentioning

confidence: 99%

Comparative Analysis of the Complete Mitochondrial Genomes for Development Application

Kenechukwu

et al. 2019

Front. Genet.

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This present research work reports the comparative analysis of the entire nucleotide sequence of mitochondrial genomes of Serranochromis robustus and Buccochromis nototaenia and phylogenetic analyses of their protein-coding genes in order to establish their phylogenetic relationship within Cichlids. The mitochondrial genomes of S. robustus and B. nototaenia are 16,583 and 16,580 base pairs long, respectively, including 13 protein-coding genes (PCGs), 2 ribosomal RNA genes, 22 transfer RNA genes, and one control region (D-loop) which is 888 and 887 base pairs long, respectively, showing the same gene order and identical number of gene or regions with other well-elucidated mitogenomes of Cichlids. However, with exception of cytochrome-c oxidase subunit-1 (COX-1) gene, all the identified PCGs were initiated by ATG-codons. Structurally, 11 tRNA genes in B. nototaenia species and 9 tRNA genes in S. robustus species, folded into typical clover-leaf secondary structure created by the regions of self-complementarity within tRNA. All the 22 tRNA genes in both species lack variable loop. Moreover, 28 genes which include 12-protein-coding genes are encoded on the H-strand and the remaining 9 genes including one protein-coding gene are encoded on the L-strand. Thirteen sequences of concatenated mitochondrial protein-coding genes were aligned using MUSCLE, and the phylogenetic analyses performed using maximum likelihood and Bayesian inference showed that S. robustus and B. nototaenia had a broad phylogenetic relationship. These results may be a useful tool in resolving higher-level relationships in organisms and a useful dataset for studying the evolution of the Cichlidae mitochondrial genome, since Cichlids are well-known model species in the study of evolutionary biology, because of their extreme morphological, biogeographical, parental care behavior for eggs and larvae and phylogenetic diversities.

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Section: Resultsmentioning

confidence: 99%

Comparative Analysis of the Complete Mitochondrial Genomes for Development Application

Kenechukwu

et al. 2019

Front. Genet.

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“…Parachromis managuensis is a native cichlid species from Central America. This fish species has been recently cultured in southern China and exhibits a high breeding value for ornamental and nutritional purposes [13,14]. The optimum survival temperature for P. managuensis is 25 C to 36 C. Under this high temperature, the proliferation of the pathogens is rapidly causing several risks to the growth of the fish.…”

Section: Introductionmentioning

confidence: 99%

Evidence for natural selection of immune genes from Parachromis managuensis by transcriptome sequencing

Zhong

Hong

Tang

et al. 2018

Biotechnology & Biotechnological Equipment

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Parachromis managuensis is a native cichlid fish from Central America that has been recently introduced to Southern China. The present study aimed to identify the adaptive evolution of P. managuensis using transcriptome data and provided genetic information regarding this novel fish in China. We obtained the transcriptome sequences from a mixed cDNA library of P. managuensis. A total of 19,419,739 raw reads were obtained from the cDNA library. The de novo assembly generated a total of 102,977 unigenes. The genomic data of Atlantic cod (Gadus morhua) and Nile tilapia (Oreochromis niloticus) were used to identify orthologs by phylogenetic analysis. Based on the phylogeny, we detected 105 positively selected genes in P. managuensis from 6197 orthologous unigenes. The GO annotation revealed that the T-box protein 20 (TBX20) in the category 'Immune system process' was positively selected and four positively selected genes were found in the 'Immune system' pathway by KEGG analysis. Among them, the genes encoding for phosphoinositide 3-kinase adapter protein 1, ras-related protein Rap-1b, complement factor I and probable ATP-dependent RNA helicase DHX58 were associated with immune adaptation. These findings can provide additional information regarding the natural selection of P. managuensis and can be used as a representative example for future comparative transcriptome and immunological studies.

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Complete mitochondrial genome of Parachromis managuensis (Perciformes: Cichlidae)

Cited by 2 publications

References 6 publications

Comparative Analysis of the Complete Mitochondrial Genomes for Development Application

Comparative Analysis of the Complete Mitochondrial Genomes for Development Application

Evidence for natural selection of immune genes from Parachromis managuensis by transcriptome sequencing

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