Evolutionary genomics in Metazoa: the mitochondrial DNA as a model system

Saccone, Cecilia; Giorgi, Carla De; Gissi, Carmela; Pesole, Graziano; Reyes, Aurelio

doi:10.1016/s0378-1119(99)00270-x

Cited by 435 publications

(283 citation statements)

References 77 publications

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“…Mitochondrial DNA (mtDNA) has been considered as a potential genetic marker in phylogeny, population and evolutionary studies for a wide variety of animal taxa (Saccone 1999), including the bivalves, due to its maternal inheritance, its haploid nature and the fact that its effective population size is the one fourth of that of the nuclear DNA. The characterization of mitochondrial genes has contributed to the identification of informative sequences that have improved our understanding of organism evolution and the diversity of the mitochondrial genome.…”

Section: Introductionmentioning

confidence: 99%

Genetic structure of the endangered species Pinna nobilis (Mollusca: Bivalvia) inferred from mtDNA sequences

et al. 2008

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This study examines the population genetic structure of the endangered bivalve Pinna nobilis (Mollusca: Bivalvia), based on novel mtDNA sequences (partial COI and 16S rDNA mtDNA genes). The analyzed nucleotide sequences of COI were 729 bp in size, coding for a 243 amino acid peptide, while the analyzed nucleotide sequences of 16S rDNA were 489 bp in size. These sequences of P. nobilis were the first DNA sequences of the species submitted to any Genetic Data Base. Population samples from four geographic regions from Greece, as well as a population sample of Atrina fragilis (as an outgroup) were used. High values of haplotypic diversity were found in the population samples of P. nobilis, based on the COI sequences. A single base in the analyzed 16S rDNA sequences was different in all analyzed individuals from a single population sample (Chios island) differentiating it from the other ones. These mtDNA sequences could be informative for further genetic analyses of the endangered species, contributing in conservation plans for its protection and/or aquaculture investigations.

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Section: Introductionmentioning

confidence: 99%

Genetic structure of the endangered species Pinna nobilis (Mollusca: Bivalvia) inferred from mtDNA sequences

et al. 2008

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“…On average, there are 3.6 to 1 transitions to transversions (R) between the mtCYTB and nCYTB tuatara sequences compared with an average R of 6.9 among mtCYTB sequences, matching expectations of a lower R between mitochondrial and nuclear sequences than among mitochondrial DNA sequences (Saccone et al, 1999). Between the mitochondrial and nuclear sequences, there are 0.57 synonymous substitutions/synonymous site and 0.05 nonsynonymous substitutions/nonsynonymous site (based on the vertebrate mitochondrial genetic code), and an average distance (Kimura 2-parameter) of 0.219.…”

Section: Resultsmentioning

confidence: 55%

“…Rest et al (2003) have confirmed that there is a single copy only of cytochrome b in the tuatara mitochondrial genome. In addition, one would expect a higher percentage of guanine (G) in nuclear than in L-strand mitochondrial sequences (Saccone et al, 1999). We see this in the putative tuatara numt, which has an average of 17.5% G compared to 14.7% in tuatara mtCYTB.…”

Section: Resultsmentioning

confidence: 60%

Nuclear mitochondrial pseudogenes as molecular outgroups for phylogenetically isolated taxa: a case study in Sphenodon

2004

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“…Постотак G+C креће од екстремно ниског у мтДНК инсеката (Artropoda генерално  23.21  5.84) и ваљкастих црва (26.17  2,15), нешто вишег код кичмењака, до врло високог код птица ( 45.87  3.08), коштаних риба и сисара (40.27  3.08). Особито висок G+C састав мтДНА имају примати, чак 44.330.42% (Saccone et al, 1999). Код Demospongiae је релативно висок и варира од 28% код Igernella notabilis до 44% код врсте Amphimedon queenslandica.…”

Section: резултати и дискусијаunclassified

Митохондријални Геноми Класе Demospongiae Sollas 1885

Елез-Бурњаковић¹,

Смајловић²,

Кулић³

2016

SBERS

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ELEZ-BURNJAKOVIĆ, Nikolina, Ajla SMAJLOVIĆ, M. KULIĆ: MITOCHONDRIAL GENOMES OF THE CLASS DEMOSPONGIAE SOLLAS 1885.[ 1 Faculty of Medicine, University of East Sarajevo, Studentska 5, 73300 Foča, Bosnia and Herzegovina, 2 Academy of Music, University Sarajevo, Josipa Stadlera ½, 71000 Sarajevo, Bosnia and Herzegovina] Mitochondria, the energy-producing organelles of the eukaryotic cell, originate from an endosymbiotic -proteobacterium. Genome architecture and gene content of mitochondrial DNA (mtDNA) vary extensively throughout eukaryotes. New insights into early mitochondrial genome evolution come from the investigation of the most primitive mitochondriate eukaryotes, as well as from the comparison between mitochondria and intracellular bacterial symbionts. Determining the primary structure of the circular mitochondrial (mt) genome from phylum Demospongiae Sollas 1885, representative of the oldest and most simple metazoan phylum, their approximate size and gene content were defined. The genetic code is minimally derived and only the UGA termination codon is used to code for triptophan, as from the all analyzed poriferan mtDNA. In this paper, sequenced mitochondrial genomes from phylum Demospongiae, their size, rRNA, tRNA and coding genes are presented. Data of variable metazoan G+C content are also described. In this work, unuploaded mitochondrial genome of Spongilla lacustris Linnaeus 1758 is included. It has shown some ancestral but also typical animal-like characteristics which classify the phylum Demospongiae at the basal position of multicellular animals. Demosponge mitochondrial genomes contain set of 2-27 tRNA genes. tRNA genes, among all species,are conserved in their size, primary and secondary structure. Small and large rRNA genes (rns and rnl), arranged near each other (separate with 1-3 tRNA) in the most analised genomes are highly conserved. A lot of Demosponge species have set of 13 protein genes. Key words: Demospongiae, Metazoa, mtDNA, tRNA, rRNA, protein genes СажетакМитохондрије су органеле специјализоване за производњу енергије у еукариотским ћелијама, а воде поријекло од ендосимбиотских -протеобактерија. Постоје значајне разлике у архитектури митохондријалних генома и саставу гена међу различитим групама Metazoa. Истраживањем митохондријалне ДНК (мтДНК, енгл. mtDNA) најједноставнијих вишећелијских организама стичу се нове спознаје о раним фазама еволуције митохондријалних генома. Одређивањем примарне структуре циркуларне митохондријалне ДНК спужви класе Demospongiae Sollas, 1885 процијењена је њихова приближна величина и састав гена. Генетички код је минимално измијењен, само се терминацијски кодон UGA препознаје као кодон за триптофан, Николина Елез-Бурњаковић, Ајла Смајловић, Милан Кулић 66 што је одлика до сада анализираних мтДНК из филума Porifera. У овом раду су дати прегледи до сада анализираних митохондријалних генома класе Demospongiae, њихова величина, те гени за малу (rns) и велику (rnl) подјединицу рибозомалне РНК (рРНК), транспортне РНК (тРНК) и кодирајуће гене. Дат је...

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Evolutionary genomics in Metazoa: the mitochondrial DNA as a model system

Cited by 435 publications

References 77 publications

Genetic structure of the endangered species Pinna nobilis (Mollusca: Bivalvia) inferred from mtDNA sequences

Genetic structure of the endangered species Pinna nobilis (Mollusca: Bivalvia) inferred from mtDNA sequences

Nuclear mitochondrial pseudogenes as molecular outgroups for phylogenetically isolated taxa: a case study in Sphenodon

Митохондријални Геноми Класе Demospongiae Sollas 1885

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