RESUMO
Despite the ecological importance and the potential pharmacological application of the sponge Mycale (Carmia) cecilia, it is uncertain whether the body-color variation, even in individuals coexisting in the same area, is due to intraspecific phenotypic plasticity or corresponds to taxonomic divergence. This uncertainty is relatively common in several Porifera groups, which lack the resolution of morphological diagnostic characters and slow-evolving mitochondrial genomes as occurs in early splitting lineages. We sequenced the RNA of six individuals with two different body-color (green-morphotype and red-morphotype) collected at the same time side by side. High-throughput sequencing of cDNA libraries produced ~ 129 million reads with a length of 150 bp. Each morphotype was assembled separately owing to the low overlapping in the global assembly. Metatranscriptome de novo assembly of the trimmed and normalized reads produced 461 thousand transcripts for the green-morphotype and 342 thousand for the red-morphotype (respectively). Over 30% of the transcripts contained Open Reading Frames (ORFs) with functional significance. BUSCO analysis of the ORFs of putative poriferan origin (31.3% green or 30.4% red) indicated that our assemblies are 60% complete. This is the first attempt to evaluate the morphological diversity in the species M. (C.) cecilia and the phylum Porifera at the transcriptomic level. Due to the minimum overlap of the assembly and that, the red-morphotype diverged significantly from the green-morphotype (original color of M. (C.) cecilia). Therefore, we suggest that the red-morphotype should undergo a complete taxonomic investigation and its taxonomic status be reviewed. We expect that the transcriptome assembly metrics can be useful for comparing other transcriptome assemblies of non-model organisms.
Assuntos
Organismos Aquáticos/genética , Pigmentação/genética , Poríferos/genética , Transcriptoma/genética , Animais , Genoma , Fenótipo , RNA Mensageiro/genética , RNA Mensageiro/metabolismoRESUMO
We report the first mitochondrial genome of a Verongid sponge, Aplysina gerardogreeni from the Pacific Ocean. This has 19,620 bp and includes 14 protein-coding genes, 2 rRNAs genes, and 25 tRNAs genes. The gene arrangement was similar to the one found in two Caribbean Aplysina mitogenomes previously reported. Comparative analyses revealed a few substitutions among congeneric mitogenomes. The mitogenome of A. gerardogreeni could be useful to study the evolution of Verongimorpha group and also to identify adequate genes for its molecular systematics.
RESUMO
The complete mitochondrial genome of the giant electric ray is 17,081 bp long (GenBank accession KM386678) and includes 2 ribosomal RNA, 22 transfer RNA, 13 protein-coding genes, an origin of replication, 2 non-coding regions. The mitochondrial gene arrangement is similar to that found in other batoids. The control region possessed a set of tandem repeats. Start codon ATG and stop codon TAA/T were found in most protein-coding genes. The base composition of the genome is 36.2% A, 29.9% T, 21.9% C, and 11.9% G.
Assuntos
Elasmobrânquios/genética , Genoma Mitocondrial/genética , Animais , Composição de Bases/genética , Códon de Iniciação/genética , Códon de Terminação/genética , Elasmobrânquios/classificação , Genes Mitocondriais/genética , RNA Ribossômico/genética , RNA de Transferência/genéticaRESUMO
The complete mitochondrial genome of the banded guitarfish is 17,310 bp long and includes 2 ribosomal RNA, 22 transfer RNA, and 13 protein-coding genes, a replication origin and a control region (GenBank accession number KM370325). Gene arrangement is similar to that found in other batoids. An extra non-coding region was found between the genes coding for transfer RNA proline and threonine possessing a set of tandem repeat motifs pointing to its origin as a duplication remnant. Start codon ATG and stop codon TAA/T were found in most protein-coding genes. The base composition of the genome is 32.3% A, 30.2% T, 24.3% C and 13.1% G.
Assuntos
DNA Intergênico/genética , Duplicação Gênica , Genoma Mitocondrial , Rajidae/genética , Animais , Pareamento de Bases/genética , Ordem dos Genes , Genes Mitocondriais , RNA de Transferência/genéticaRESUMO
The mitogenome of the beaubrummel damselfish, Stegastes flavilatus Gill, 1862 (Genebank accession number KP136922), has a total length of 16,816 bp. It encodes 13 protein-coding, two ribosomal RNAs (rRNAs), and 22 transfer RNA (tRNA) genes. Base composition is 28.6% A, 26.0% T, 29.8% C, and 15.7% G and 45.5% GC content. The gene arrangement was found to be the same of other pomacentrid mitogenomes.
Assuntos
Peixes/genética , Genoma Mitocondrial/genética , Perciformes/genética , Animais , Composição de Bases/genética , DNA Mitocondrial/genética , Proteínas de Peixes/genética , Ordem dos Genes/genética , RNA Ribossômico/genética , RNA de Transferência/genética , Análise de Sequência de DNA/métodosRESUMO
The northern Mexican Pacific (NMP), the Gulf of California (GC), and Baja California have been recognized as an ecological and evolutionarily dynamic region having experienced significant tectonic and climatic changes leading to the diversification of terrestrial and marine biotas. Zapteryx exasperata is a predominant ray caught in the artisanal fisheries of the NMP. Morphometric and reproductive differences between rays from the GC and the Pacific coast of Baja California (PCBC) regions suggest the presence of distinct populations. We investigate whether this distinction correlates with differences in genetic diversity and differentiation using sequences of the mitochondrial nicotinamide adenine dinucleotide dehydrogenase subunit 2 (ND2) gene and the noncoding control region (CR) in 63 specimens. Contrary to our expectations, ND2 bore significantly more diversity (h = 0.76) than CR (h = 0.39). Geographic patterns of diversity of CR were opposite to those of ND2, with GC being significantly less (ND2) and more (CR) diverse than PCBC. The diversity of concatenated haplotypes was high (h = 0.84). Low nucleotide diversity suggests the recent coancestry of haplotypes. Marked genetic structure (Φst = 0.23, P < 0.0001) revealed the existence of reproductive isolation and limited matrilineal gene flow between GC and PCBC, which correlates with their phenotypic distinction. These results suggest the influence of factors such as female reproductive philopatry, and ecological or historical vicariant barriers to gene flow. Our results point to the existence of a distinct management unit of banded guitarfish in each region, and add to the increasing evidence attesting to the diversifying nature of this evolutionarily dynamic region.
