DNA barcoding reflects the diversity and variety of brooding traits of fish species in the family Syngnathidae along China’s coast

Two hundred and seven species of fish, mostly Australian marine fish, were sequenced (barcoded) for a 655 bp region of the mitochondrial cytochrome oxidase subunit I gene ( cox1 ). Most species were represented by multiple specimens, and 754 sequences were generated. The GC content of the 143 species of teleosts was higher than the 61 species of sharks and rays (47.1% versus 42.2%), largely due to a higher GC content of codon position 3 in the former (41.1% versus 29.9%). Rays had higher GC than sharks (44.7% versus 41.0%), again largely due to higher GC in the 3rd codon position in the former (36.3% versus 26.8%). Average within-species, genus, family, order and class Kimura two parameter (K2P) distances were 0.39%, 9.93%, 15.46%, 22.18% and 23.27%, respectively. All species could be differentiated by their cox1 sequence, although single individuals of each of two species had haplotypes characteristic of a congener. Although DNA barcoding aims to develop species identification systems, some phylogenetic signal was apparent in the data. In the neighbour-joining tree for all 754 sequences, four major clusters were apparent: chimaerids, rays, sharks and teleosts. Species within genera invariably clustered, and generally so did genera within families. Three taxonomic groups—dogfishes of the genus Squalus , flatheads of the family Platycephalidae, and tunas of the genus Thunnus —were examined more closely. The clades revealed after bootstrapping generally corresponded well with expectations. Individuals from operational taxonomic units designated as Squalus species B through F formed individual clades, supporting morphological evidence for each of these being separate species. We conclude that cox1 sequencing, or ‘barcoding’, can be used to identify fish species.

Download Full-text

Molecular Identification of Mudskipper Fish (Periophthalmus spp.) from Baros Beach, Bantul, Yogyakarta

Journal of Tropical Biodiversity and Biotechnology ◽

10.22146/jtbb.66391 ◽

2021 ◽

Vol 6 (3) ◽

pp. 66391

Author(s):

Katon Waskito Aji ◽

Tuty Arisuryanti

Keyword(s):

Genetic Distance ◽

Cryptic Species ◽

Dna Barcoding ◽

Fish Species ◽

Mitochondrial Gene ◽

Universal Primers ◽

Molecular Approaches ◽

Morphological Studies ◽

The Family ◽

Pcr Method

Mudskipper fish is amphibious fish belonging to the family Gobiidae. Coastal communities widely consume mudskipper to meet their animal protein needs. Mudskipper is primarily cryptic species that are morphologically difficult to identify and distinguish from other mudskipper fish species. Consequently, it can be confused with the naming of mudskipper fish species and can affect the conservation efforts of the fish in their habitat. One of the molecular approaches that can be used to identify the fish species quickly and accurately is DNA barcoding using the COI mitochondrial gene. However, the research on the identification of mudskipper fish in Indonesia is still very limited. Therefore, this study aimed to identify 26 mudskipper fish from Baros Beach, Bantul, Yogyakarta, using COI mitochondrial gene as a molecular marker for DNA barcoding. The method used in this study was a PCR method with universal primers, FishF2 and FishR2. The data obtained were then analyzed using GeneStudio, DNASTAR, BLAST, Identification Engine, Mesquite, MEGAX, and BEAST. The analysis was conducted to obtain similarity, genetic distance and reconstruct a phylogenetic tree. The result revealed that all 26 samples of mudskippers collected from Baros Beach were identified in one genus, namely Periophthalmus, and consisted of 3 species, namely P. kalolo (16 samples), P. argentilineatus (9 samples), and P. novemradiatus (1 sample). Furthermore, this study also discovered a suspected cryptic species in P. argentilineatus with a genetic distance of 5.46-5.96% between clade E, F compared with clade G. Further morphological studies are needed to confirm the species status of these three clades before solidly proclaim that they are cryptic species.

Download Full-text

Efficacy of DNA barcoding for the identification of larval fish species in the Upper and Middle Ing River, Thailand

Gene Reports ◽

10.1016/j.genrep.2021.101057 ◽

2021 ◽

Vol 23 ◽

pp. 101057

Author(s):

Dutrudi Panprommin ◽

Kanyanat Soontornprasit ◽

Siriluck Tuncharoen ◽

Niti Iamchuen

Keyword(s):

Dna Barcoding ◽

Fish Species ◽

Larval Fish

Download Full-text

The first representatives of the millipede family Glomeridellidae (Diplopoda, Glomerida) recorded from China and Indochina

ZooKeys ◽

10.3897/zookeys.954.54694 ◽

2020 ◽

Vol 954 ◽

pp. 1-15

Author(s):

Weixin Liu ◽

Sergei Golovatch

Keyword(s):

Phylogenetic Analysis ◽

New Species ◽

Dna Barcoding ◽

Southern China ◽

Mitochondrial Gene ◽

Guizhou Province ◽

The Family ◽

Structural Details ◽

Molecular Phylogenetic ◽

A New Species

A new species of glomeridellid millipede is described from Guizhou Province, southern China: Tonkinomeris huzhengkunisp. nov. This new epigean species differs very clearly in many structural details, being sufficiently distinct morphologically and disjunct geographically from T. napoensis Nguyen, Sierwald & Marek, 2019, the type and sole species of Tonkinomeris Nguyen, Sierwald & Marek, 2019, which was described recently from northern Vietnam. The genus Tonkinomeris is formally relegated from Glomeridae and assigned to the family Glomeridellidae, which has hitherto been considered strictly Euro-Mediterranean in distribution and is thus new to the diplopod faunas of China and Indochina. Tonkinomeris is re-diagnosed and shown to have perhaps the basalmost position in the family Glomeridellidae. Its relationships are discussed, both morphological and zoogeographical, within and outside the Glomeridellidae, which can now be considered as relict and basically Oriental in origin. Because of the still highly limited array of DNA-barcoding sequences of the COI mitochondrial gene available in the GenBank, the first molecular phylogenetic analysis of Glomerida attempted here shows our phylogram to be too deficient to consider meaningful.

Download Full-text

DNA Barcoding Revealed Mislabeling and Potential Health Concerns with Roasted Fish Products Sold across China

Journal of Food Protection ◽

10.4315/0362-028x.jfp-18-514 ◽

2019 ◽

Vol 82 (7) ◽

pp. 1200-1209 ◽

Cited By ~ 7

Author(s):

XIONG XIONG ◽

FANGYING YUAN ◽

MANHONG HUANG ◽

LIXIA LU ◽

XIAOHUI XIONG ◽

...

Keyword(s):

Dna Barcoding ◽

Fish Species ◽

Morphological Characteristics ◽

Economic Loss ◽

High Price ◽

Snack Food ◽

Fish Fillet ◽

Potential Health ◽

Fish Products ◽

Republic Of China

ABSTRACTRoasted fish fillet is a popular snack food in the People's Republic of China, and the market appeal can be reflected by the high price, which exceeds 330 RMB/kg in some cases. However, the labeled fish common name generally cannot be connected with a particular species, and the processing treatments make it a challenging task to identify fish species based on morphological characteristics. This study used full DNA barcoding and mini-DNA barcoding for species identification of 202 specimens sorted from 64 roasted fish fillet products sold across China, which belonged to 32 distinct brands and claimed 16 fish common names on the label. Given the absence of a harmonization in defining these common names in China, scientific literature and the Latin-Chinese dictionary of fish names (http://fishdb.sinica.edu.tw/) were consulted to define at least the family for each common name, and an identified species outside the expected family was determined to be mislabeled. Results highlighted a high mislabeling rate of 75.5%. Even worse, fish species were identified as belonging to multiple families, not only from several products of the same brand under the same common name but also from several specimens sorted from the same product. Moreover, a health issue was highlighted by the identification of toxic Tetraodontidae species from one product. To protect the consumers from economic loss and even health risks, we recommended amendments to existing legislation and the compilation of a list of acceptable market names for fish species in China. Meanwhile, DNA barcoding is a powerful tool in fish forensics, and we recommended the use of this technique to assure the accurate species labeling of fish products.HIGHLIGHTS

Download Full-text