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Complete mitochondrial genome from South American catfish Pseudoplatystoma reticulatum (Eigenmann & Eigenmann) and its impact in Siluriformes phylogenetic tree. Repositório Alice
VILLELA, L. C. V.; ALVES, A. L.; VARELA, E. S.; YAMAGISHI, M. E. B.; GIACHETTO, P. F.; SILVA, N. M. A. da; PONZETTO, J. M.; PAIVA, S. R.; CAETANO, A. R..
The cachara (Pseudoplatystoma reticulatum) is a Neotropical freshwater catfish from family Pimelodidae (Siluriformes) native to Brazil. The species is of relative economic importance for local aquaculture production and basic biological information is under development to help boost efforts to domesticate and raise the species in commercial systems. The complete cachara mitochondrial genome was obtained by assembling Illumina RNA-seq data from pooled samples. The full mitogenome was found to be 16,576 bp in length, showing the same basic structure, order, and genetic organization observed in other Pimelodidae, with 13 protein-coding genes, 2 rNA genes, 22 trNAs, and a control region. Observed base composition was 24.63% T, 28.47% C, 31.45% A, and 15.44% G....
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Cachara; Peixe-gato; Mitogenome; Aquicultura; Filogenia; Melhoramento genético animal; Peixe de água doce; RNA; Pseudoplatystoma reticulatum; Mitochondrial genome; Siluriformes; Phylogeny; Catfish; Single nucleotide polymorphism.
Ano: 2017 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1074198
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Complete mitochondrial genome of the Florida manatee (Trichechus manatus latirotris, Sirenia) Genet. Mol. Biol.
Vilaça,Sibelle T.; Santos,Fabricio R..
Abstract The Florida manatee (Trichechus manatus latirostris) is an endangered subspecies of the West Indian manatee (T. manatus), which inhabits inland and marine waters of southeastern United States. In this study, we assembled the mitochondrial genome (mtDNA) of the Florida manatee from whole genome shotgun reads. As a result, we show that the currently annotated T. manatus mtDNA belongs to a different species, the Amazonian manatee (T. inunguis). The newly assembled Florida manatee mtDNA is 16,881 bp in length, with 13 protein-coding genes, two ribosomal RNAs (rRNAs), 22 transfer RNAs (tRNAs) and one non-coding control region (D-loop). Phylogenetic analysis based on the control region indicates the newly assembled mtDNA is haplotype A01, characteristic...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Trichechus manatus; Florida manatee; Amazonian manatee; Mitochondrial genome.
Ano: 2019 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572019000500201
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Complete mitochondrial genome of the lappet moth, Kunugia undans (Lepidoptera: Lasiocampidae): genomic comparisons among macroheteroceran superfamilies Genet. Mol. Biol.
Kim,Min Jee; Jeong,Jun Seong; Kim,Jong Seok; Jeong,Su Yeon; Kim,Iksoo.
Abstract The mitochondrial genome (mitogenome) characteristics of the monotypic Lasiocampoidea are largely unknown, because only limited number of mitogenomes is available from this superfamily. In this study, we sequenced the complete mitogenome of the lappet moth, Kunugia undans (Lepidoptera: Lasiocampidae) and compared it to those of Lasiocampoidea and macroheteroceran superfamilies (59 species in six superfamilies). The 15,570-bp K. undans genome had one additional trnR that was located between trnA and trnN loci and this feature was unique in Macroheterocera, including Lasiocampoidea. Considering that the two trnR copies are located in tandem with proper secondary structures and identical anticodons, a gene duplication event might be responsible for...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Kunugia undans; Mitochondrial genome; Lasiocampoidea; Macroheterocera.
Ano: 2017 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000400717
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Complete sequence and organization of the mitochondrial genome of Cyclemys atripons (Testudines, Geoemydidae) Genet. Mol. Biol.
Zhang,Li; Nie,Liu-wang; Zhang,Ying; Rui,Jin-long; Zhang,Yan-yun.
The Black Bridged Leaf Turtle, Cyclemys atripons (Testudines; Cryptodira; Geoemydidae), is a poorly known species within the genus Cyclemys. We determined the complete nucleotide sequence of the Cyclemys atripons mitochondrial genome (mtDNA) and found it to be 16,500 base pairs (bp) in length, with the genome organization, gene order and base composition being identical to that of the typical vertebrate. However, unlike for most turtle mtDNA so far reported, an extra base was not found in the NADH3 gene. The C. atripons control region of mtDNA was 981 bp long. Comparisons with three other geoemydids showed that the C. atripons control region contained a highly variable region at the 3' end composed of AT enriched tandem repeats containing a fifteen-unit...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Control region; Cyclemys atripons; Mitochondrial genome; Tandem repeats.
Ano: 2008 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572008000400027
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Mitochondrial genome nucleotide substitution pattern between domesticated silkmoth, Bombyx mori, and its wild ancestors, Chinese Bombyx mandarina and Japanese Bombyx mandarina Genet. Mol. Biol.
Li,Yu-Ping; Song,Wu; Shi,Sheng-Lin; Liu,Yan-Qun; Pan,Min-Hui; Dai,Fang-Yin; Lu,Cheng; Xiang,Zhong-Huai.
Bombyx mori and Bombyx mandarina are morphologically and physiologically similar. In this study, we compared the nucleotide variations in the complete mitochondrial (mt) genomes between the domesticated silkmoth, B. mori, and its wild ancestors, Chinese B. mandarina (ChBm) and Japanese B. mandarina (JaBm). The sequence divergence and transition mutation ratio between B. mori and ChBm are significantly smaller than those observed between B. mori and JaBm. The preference of transition by DNA strands between B. mori and ChBm is consistent with that between B. mori and JaBm, however, the regional variation in nucleotide substitution rate shows a different feature. These results suggest that the ChBm mt genome is not undergoing the same evolutionary process as...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Nucleotide substitution pattern; Mitochondrial genome; Bombyx mori; Chinese Bombyx mandarina; Japanese Bombyx mandarina.
Ano: 2010 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572010000100031
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Repetitive element palindromic PCR (rep-PCR) as a genetic tool to study interspecific diversity in Euphorbiaceae family Electron. J. Biotechnol.
Rampadarath,Sillma; Puchooa,Daneshwar; Bal,Subhasisa.
Background The classification of diversity in germplasm collections is important for plant breeding. The repetitive element palindromic-polymerase chain reaction (rep-PCR) technique was used to investigate inter-specific diversity within 17 species from the Euphorbiaceae family using REP and BOX primers. Results The agglomerative cluster analysis was used to evaluate the scoring data. BOX and REP gave amplification with polymorphism of 98.84% and 100% respectively. REP marker demarcated between the subgenus peltatae. Both markers confirmed Jatropha tanjorensis as a natural hybrid between Jatropha gossypifolia and Jatropha curcas. Five random sequences from the rep-PCR gels were chosen, cloned and sequenced. The blast results demonstrated that the amplified...
Tipo: Journal article Palavras-chave: Euphorbiaceae; Genetic diversity; Jatropha; Mitochondrial genome; Rep-PCR.
Ano: 2015 URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-34582015000600005
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The complete mitochondrial DNA sequence of the pantropical earthworm pontoscolex corethrurus (Rhinodrilidae, Clitellata): Mitogenome characterization and phylogenetic positioning. Repositório Alice
CONRADO, A. C.; ARRUDA, H.; STANTON, D. W. S.; JAMES, S. W.; KILLE, P.; BROWN, G. G.; SILVA, E. da; DUPONT, E.; TAHERI, S.; MORGAN, A. J.; SIMÕES, N.; RODRIGUES, A.; MONTIEL, R.; CUNHA, L..
Pontoscolex corethrurus (Müller, 1857) plays an important role in tropical soil ecosystems and has been widely used as an animal model for a large variety of ecological studies, in particular due to its common presence and generally high abundance in human-disturbed tropical soils. In this study we describe the complete mitochondrial genome of the peregrine earthworm P. corethrurus. This is the first record of a mitochondrial genome within the Rhinodrilidae family. Its mitochondrial genome is 14 835 bp in length containing 37 genes (13 protein-coding genes (PCG), 2 rRNA genes and 22 tRNA genes). It has the same gene content and structure as in other sequenced earthworms, but unusual among invertebrates it has several overlapping open reading frames. All...
Tipo: Artigo em periódico indexado (ALICE) Palavras-chave: Açores; Rhinodrilidae; Peregrine species; Azores; Minhoca; Mitocôndria; Genoma; Pontoscolex corethrurus; Mitochondrial genome; Mitochondria; Earthworm.
Ano: 2017 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1076456
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The complete mitochondrial genome of Engyodontium album and comparative analyses with Ascomycota mitogenomes Genet. Mol. Biol.
Yuan,Xiao-Long; Mao,Xin-Xin; Liu,Xin-Min; Cheng,Sen; Zhang,Peng; Zhang,Zhong-Feng.
Abstract Engyodontium album is a widespread pathogen that causes different kinds of dermatoses and respiratory tract diseases in humans and animals. In spite of its perniciousness, the basic genetic and molecular background of this species remains poorly understood. In this study, the mitochondrial genome sequence of E. album was determined using a high-throughput sequencing platform. The circular mitogenome was found to be 28,081 nucleotides in length and comprised of 17 protein-coding genes, 24 tRNA genes, and 2 rRNA genes. The nucleotide composition of the genome was A+T-biased (74.13%). Group-II introns were found in the nad1, nad5, and cob genes. The most frequently used codon of protein-coding genes was UAU. Isoleucine was identified as the most...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Engyodontium album; Mitochondrial genome; Comparative analysis; Phylogenetic analyses.
Ano: 2017 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000500844
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The complete mitochondrial genome of the small yellow croaker and partitioned Bayesian analysis of Sciaenidae fish phylogeny Genet. Mol. Biol.
Cheng,Yuanzhi; Wang,Rixin; Sun,Yuena; Xu,Tianjun.
To understand the phylogenetic position of Larimichthys polyactis within the family Sciaenidae and the phylogeny of this family, the organization of the mitochondrial genome of small yellow croaker was determined herein. The complete, 16,470 bp long, mitochondrial genome contains 37 mitochondrial genes (13 protein-coding, 2 ribosomal RNA and 22 transfer RNA genes), as well as a control region (CR), as in other bony fishes. Comparative analysis of initiation/termination codon usage in mitochondrial protein-coding genes of Percoidei species, indicated that COI in Sciaenidae entails an ATG/AGA codon usage different from other Percoidei fishes, where absence of a typical conserved domain or motif in the control regions is common. Partitioned Bayesian analysis...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Larimichthys polyactis; Mitochondrial genome; Control region; Partitioned Bayesian analysis; Sciaenidae.
Ano: 2012 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000100027
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The complete mitochondrial genome sequence of the black-capped capuchin (Cebus apella) Genet. Mol. Biol.
Bi,Xiao-xin; Huang,Ling; Jing,Mei-dong; Zhang,Li; Feng,Pei-yong; Wang,Ai-yun.
The phylogenetic relationships of primates have been extensively investigated, but key issues remain unresolved. Complete mitochondrial genome (mitogenome) data have many advantages in phylogenetic analyses, but such data are available for only 46 primate species. In this work, we determined the complete mitogenome sequence of the black-capped capuchin (Cebus apella). The genome was 16,538 bp in size and consisted of 13 protein-coding genes, 22 tRNAs, two rRNAs and a control region. The genome organization, nucleotide composition and codon usage did not differ significantly from those of other primates. The control region contained several distinct repeat motifs, including a putative termination-associated sequence (TAS) and several conserved sequence...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Cebus apella; Control region; Mitochondrial genome; Phylogenomics.
Ano: 2012 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572012000300023
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The complete mitochondrial genome sequence of the little egret (Egretta garzetta) Genet. Mol. Biol.
Zou,Yi; Jing,Mei-dong; Bi,Xiao-xin; Zhang,Ting; Huang,Ling.
Many phylogenetic questions in the Ciconiiformes remain unresolved and complete mitogenome data are urgently needed for further molecular investigation. In this work, we determined the complete mitogenome sequence of the little egret (Egretta garzetta). The genome was 17,361 bp in length and the gene organization was typical of other avian mtDNA. In protein-coding genes (PCGs), a C insertion was found in ND3, and CO III and ND4 terminated with incomplete stop codons (T). tRNA-Val and tRNA-Ser (AGY) were unable to fold into canonical cloverleaf secondary structures because they had lost the DHU arms. Long repetitive sequences consisting of five types of tandem repeats were found at the 3′ end of Domain III in the control region. A phylogenetic analysis of...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Egretta garzetta; Mitochondrial genome; Phylogenomics.
Ano: 2015 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572015000200162
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The mitochondrial genome of the stingless bee Melipona bicolor (Hymenoptera, Apidae, Meliponini): sequence, gene organization and a unique tRNA translocation event conserved across the tribe Meliponini Genet. Mol. Biol.
Silvestre,Daniela; Dowton,Mark; Arias,Maria Cristina.
At present a complete mtDNA sequence has been reported for only two hymenopterans, the Old World honey bee, Apis mellifera and the sawfly Perga condei. Among the bee group, the tribe Meliponini (stingless bees) has some distinction due to its Pantropical distribution, great number of species and large importance as main pollinators in several ecosystems, including the Brazilian rain forest. However few molecular studies have been conducted on this group of bees and few sequence data from mitochondrial genomes have been described. In this project, we PCR amplified and sequenced 78% of the mitochondrial genome of the stingless bee Melipona bicolor (Apidae, Meliponini). The sequenced region contains all of the 13 mitochondrial protein-coding genes, 18 of 22...
Tipo: Info:eu-repo/semantics/article Palavras-chave: Melipona bicolor; Meliponini; Social insects; Mitochondrial genome; Gene rearrangements.
Ano: 2008 URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572008000300010
Registros recuperados: 12
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