TY - JOUR
T1 - 28S rDNA as an alternative marker for commercially important oyster identification
AU - Mazón-Suástegui, José Manuel
AU - Fernández, Natalia Trabal
AU - Valencia, Ignacio Leyva
AU - Cruz-Hernández, Pedro
AU - Latisnere-Barragán, Hever
N1 - Publisher Copyright:
© 2016 Elsevier Ltd.
PY - 2016/8/1
Y1 - 2016/8/1
N2 - Seafood marketing requires certificated products generated under sustainable management practices. The oyster farming is profitable but its identification, and hence certification is difficult due to their phenotypic plasticity. This study intends to prove that 28S rRNA has a comparable level of resolution for the correctly oyster species identification. Additionally, the resolution level of mitochondrial cytochrome c oxidase subunit I (COI) and nuclear inter-transcribed spacer 1 (ITS-1) were assessed. Under a phylogenetic approach, levels of genetic divergence intra and inter specific and nucleotide substitution saturation, were analyzed from 196 sequences of 9 oyster species belonging to the subfamilies Crassostreinae (Crassostrea gigas, Crassostrea sikamea, Crassostrea virginica, Crassostrea rhizophorae, Crassostrea corteziensis and Crassostrea columbiensis), Striostreinae (Saccostrea palmula and Striostrea prismatica) and Ostreinae (Ostrea chilensis). The results showed the higher genetic divergence for ITS-1 followed by COI and 28S. However, the substitution saturation analysis shown that the phylogenetic signal of ITS-1 was unreliable. For COI, the phylogenetic signal was moderate and problems to separate (S. palmula and S. prismatica) and obtain (C. corteziensis and C. columbiensis) haplotypes, were experienced. Finally, although the 28S showed the lower level of genetic divergence, their saturation analysis showed a reliable phylogenetic signal and correctly identify all the oyster species and clustered them by subfamily and geographic origin. Hence, the 28S fragment analyzed shown that could be used as an alternative marker and presented advantage due to its methodological simplicity and confidence for species identification.
AB - Seafood marketing requires certificated products generated under sustainable management practices. The oyster farming is profitable but its identification, and hence certification is difficult due to their phenotypic plasticity. This study intends to prove that 28S rRNA has a comparable level of resolution for the correctly oyster species identification. Additionally, the resolution level of mitochondrial cytochrome c oxidase subunit I (COI) and nuclear inter-transcribed spacer 1 (ITS-1) were assessed. Under a phylogenetic approach, levels of genetic divergence intra and inter specific and nucleotide substitution saturation, were analyzed from 196 sequences of 9 oyster species belonging to the subfamilies Crassostreinae (Crassostrea gigas, Crassostrea sikamea, Crassostrea virginica, Crassostrea rhizophorae, Crassostrea corteziensis and Crassostrea columbiensis), Striostreinae (Saccostrea palmula and Striostrea prismatica) and Ostreinae (Ostrea chilensis). The results showed the higher genetic divergence for ITS-1 followed by COI and 28S. However, the substitution saturation analysis shown that the phylogenetic signal of ITS-1 was unreliable. For COI, the phylogenetic signal was moderate and problems to separate (S. palmula and S. prismatica) and obtain (C. corteziensis and C. columbiensis) haplotypes, were experienced. Finally, although the 28S showed the lower level of genetic divergence, their saturation analysis showed a reliable phylogenetic signal and correctly identify all the oyster species and clustered them by subfamily and geographic origin. Hence, the 28S fragment analyzed shown that could be used as an alternative marker and presented advantage due to its methodological simplicity and confidence for species identification.
KW - COI
KW - ITS-1
KW - Molecular identification
KW - Oyster
KW - RDNA 28S
UR - http://www.scopus.com/inward/record.url?scp=84958545417&partnerID=8YFLogxK
U2 - 10.1016/j.foodcont.2016.02.006
DO - 10.1016/j.foodcont.2016.02.006
M3 - Artículo
AN - SCOPUS:84958545417
SN - 0956-7135
VL - 66
SP - 205
EP - 214
JO - Food Control
JF - Food Control
ER -