DNA barcoding of marine teleost fishes (Teleostei) in Cebu, the Philippines, a biodiversity hotspot of the coral triangle.

A morphology-based barcoding library of market teleost fishes (Teleostei) in Cebu is built based on cytochrome c oxidase subunit I (COI) sequences and voucher specimens which aimed to establish a reliable reference of frequently traded fishes in the province, a biodiversity hotspot at the center of the Philippine archipelago. A total of 1721 specimens were collected from 18 fish markets and landing sites around the province, in which 538 specimens were sequenced belonging to 393 species from 229 genera, 86 families, and 37 orders. Most speciose families are coral reef or reef-related shallow-water species. Twelve species from 11 families are newly recorded in the Philippine waters, among which 7 species are deep-sea inhabitants, while 3 species have expanded their distribution range. Only 20 taxa could not be identified to the species level due to the difficulty in morphological examinations, absence of matched reference sequences in online databases, and/or problematic species awaiting further studies. This first comprehensive DNA barcoding survey of Cebu fishes can facilitate further taxonomic research as well as the conservation and management of fisheries in the Philippines.

Long-term monitoring dataset of fish assemblages in rocky tidepools on the southern coast of Taiwan.

Long-term data of fish assemblages collected in the rocky intertidal zone provides a valuable resource for elucidating the temporal variations in species diversity and intertidal ecosystems. In this study, we describe a long-term time-series dataset of fish collected by counting the number of anesthetized fish at sampling stations in the rocky tidepools on the southern coast of Taiwan. The species assemblages were monitored seasonally at the two stations for 16 y (2000-2008 and 2012-2018). In total, 86 samples containing 5137 individuals belonging to 82 species were recorded. Our data can be used for elucidating the temporal variations in fish assemblages and intertidal ecosystems and as background information for the resilience of the fish community conservation in coastal areas. The current study presents valuable data for researchers to understand the temporal and spatial variations in species abundance, richness, diversity, and composition in relation to climate change, environmental factors, and human activities.

Stomach content analysis of young Russell's oarfish (Regalecus russelii) from Taiwan, and a report on an unusual case of predation.

In this study, we analyzed the stomach content of two individuals of rare, young Russell's oarfish, Regalecus russelii, from Taiwan. One of them was captured alive along with larval fish and crustaceans by a stow net from the shallow waters (15-18m deep) of the Tamsui River mouth. A total of 38 individuals of larval fish belonging to three species (86.4% of all prey) and 6 individuals of crustaceans belonging to three species were found in the Russell's oarfish specimen's stomach. Among the prey, the Japanese anchovy (Engraulis japonicus) was the most dominant fish species, accounting for 44.7% of all fishes; and luciferids were the most dominant crustaceans, accounting for 66.7% of all crustaceans. All the prey fish were sandy or a mixture of sandy and muddy sediment dwellers. The luciferids and Japanese anchovies are characterized by having diel vertical migration behavior. Based on the sampling information and biological characteristics of the fish larvae and crustaceans, we conjectured that the abundance of these prey when they moved up to the upper layer of the Tamsui River mouth at nighttime had attracted the young Russell's oarfish to hunt there. In addition, we speculated that it might be easier for the vertical-swimming Russell's oarfish to hunt a large number of luciferids assembled in the upper layer of the water by its particular posture or angle of view.

Owstonia aurora (Perciformes: Cepolidae: Owstoniinae), a new bandfish from the Philippines.

Owstonia aurora sp. nov. is described on the base of three specimens (69.8-88.0 mm in standard length) collected off East Luzon during the "Aurora 2007" Philippine Expedition. The new species differs from its congeners by the following combination of characters: dorsal-fin elements III, 21; anal-fin elements I, 14; gill rakers on first arch 35-38; cheek with 80-86 scales in 7-8 rows; lateral line without branch, not forming loop in front of dorsal-fin, ending below 17th to 22th dorsal-fin soft rays; oblique body scale rows in mid-lateral series 54-58; lower margin of preopercle rounded; prominent black blotch on anterior dorsal-fin membrane, and extend downward to dorsal-fin base, remaining membrane of dorsal, anal, and caudal fins red with white margins and bases, distinct white stripes on mid dorsal and caudal fin membranes; membranes between maxillary and premaxillary with discontinuous black stripes or patches.

Additional description on morphology of the Misol snake eel from Taiwan, with four verified barcodes of life sequences.

An additional description of the Misol snake eel Yirrkala misolensis (Günther, 1872) is reported on the basis of 9 specimens collected from Dong-gang and Ke-tzu-liao, southwestern Taiwan. The species was previously reported from Indonesia and Australia and then extends northward to Taiwan and Japan, and was lacking adequate characterization on morphology. A detail description, fine condition of fresh photographs and 4 partial CO1 sequences are provided for the first time.

A new freshwater gobiid species of Rhinogobius Gill, 1859 (Teleostei: Gobiidae) from northern Taiwan.

A new freshwater rhinogoby has been collected and surveyed from northern Taiwan. The new species, Rhinogobius yangminshanensis n. sp. with fluvial life history can be well distinguished from other congeners by the following combination of features: (1) fin rays: second dorsal fin rays I/9; anal fin rays I/8; pectoral fin rays modally 16; (2) squamation: longitudinal scale series 28-30 (modally 29); perdorsal scales 9-10 (modally 9); (4) vertebral count 27; (5) rear edge of mouth: merely extending to vertical of anterior margin of pupil in male and (6) specific colouration: lateral side with 6-7 longitudinal rows of bright orange to orange red spots in male which general size about 1/2 of pupil diameter. Cheek and opercle with 24-35 orange spots in male. Branchiostegal membrane with many minute orange spots in male. Caudal fin with distally orange zone in male with about 3 vertical rows of orange or orange red spots. First dorsal fin with broad orange band on distally 1/3 area. A middle black spot in abterior first dorsal fin. Pectoral fin with two rows red orange spots in male. The phylogenetic comparisons have revealed that the great mitogenetic differences of R. yangminshanensis with all other congeneric species and sister species would be R. rubromaculatus in Taiwan. A diagnostic key to all valid species of Rhinogobius from Taiwan is also provided.

A new freshwater goby of Rhinogobius lingtongyanensis (Teleostei, Gobiidae) from the Dongshi river basin, Fujian Province, southeastern China.

A new species of freshwater gobiid fish of genus Rhinogobius Gill, 1859, were collected from the upper tributary of Dongshi river basin of Janchou City in southern region of Fujian Province, China. Rhinogobius lingtongyanensis n. sp. can be well distinguished from other congeners by the following features: (1) fins: second dorsal fin rays I/8; anal fin rays I/7; pectoral fin rays modally 16; (2) squamation: longitudinal scale series 25-27 (modally 26); predorsal scales 3-6 (modally 5-6); (3) vertebral count 26; and (4) specific colouration in male: lateral body with 6-7 major patches of irregularly grayish to brownish black marks; cheek blackish brown with four oblique grayish black stripes; branchiostegal membrane grayish blue without any light spots; first dorsal fin broad grayish brown band in middle, outer margin pinkish orange; pectoral fin base with longitudinal deep brown bar in upper region; and caudal fin gray with four vertical rows of brown spots, its base with a short brownish black bar. It belongs to the non-diadromous, fluvial hill-stream species. A diagnostic key to all valid species from Fujian Province, China is also provided in this paper.

Recovery and variation of the coastal fish community following a cold intrusion event in the Penghu Islands, Taiwan.

Knowledge of community resilience aids the development of strategies to mitigate the impacts of a disturbance. An extreme low-seawater temperature event in late January and February 2008 resulted in high fish mortality in the coastal waters of the Penghu Islands, Taiwan. In this study, we used underwater diving visual censuses to analyze fish communities at eight sampling stations along the coast of the Penghu Islands for seven years after the 2008 event. We evaluated community metrics, including species richness, abundance-weighted diversity, average thermal affinity, and average trophic level, and described the temporal variation in select dominant species abundances. Species richness and diversity of the communities required 53 months to reach a steady-state at the sampling stations following the cold water intrusion. The cold event initially reduced community thermal affinity, which then increased throughout the study period, reflecting the recovery of the community to baseline thermal conditions. The increased average trophic level after the cold event implied that the temperature shock decreased the proportion of lower trophic-level fishes. Average trophic level declined as the communities recovered from the disturbance, reflecting the recovery of the community to baseline species composition in terms of feeding habit. Our results suggest that functional diversity may require longer to recover than taxonomic diversity for communities in the Penghu Islands.

A long-term monitoring dataset of fish assemblages in rocky tidepools on the northern coast of Taiwan.

The assemblage of fish species in the rocky intertidal zone is highly affected by the destructive impact of human activities and has an extended impact on land-sea interactions. There are a few long-term research projects that have focused on rocky intertidal ecosystems, especially on the resident fish community. Here, we describe a long-term time series dataset of fish collected by counting the number of anesthetized fishes at sampling stations in rocky tidepools in the intertidal zones on the northern coast of Taiwan. The species assemblages were monitored seasonally at three stations from 1999 to 2018. In total, 144 samples containing 1,577 individuals belonging to 106 species were recorded in the surveys. The resulting data can be used as background information for conservation and resilience studies of the fish community in coastal areas and to establish reasonable conservation strategies. This study presents valuable data to ecologists and fisheries biologists interested in understanding the temporal patterns of species abundance, richness, and composition in relation to environmental factors, climate change, and anthropogenic pressures.

Rapid detection of CITES-listed shark fin species by loop-mediated isothermal amplification assay with potential for field use.

Shark fin is a delicacy in many Asian countries. Overexploitation of sharks for shark fin trading has led to a drastic reduction in shark population. To monitor international trade of shark fin products and protect the endangered species from further population decline, we present rapid, user-friendly and sensitive diagnostic loop-mediated isothermal amplification (LAMP) and effective polymerase chain reaction (PCR) assays for all twelve CITES-listed shark species. Species-specific LAMP and PCR primers were designed based on cytochrome oxidase I (COI) and NADH2 regions. Our LAMP and PCR assays have been tested on 291 samples from 93 shark and related species. Target shark species could be differentiated from non-target species within three hours from DNA extraction to LAMP assay. The LAMP assay reported here is a simple and robust solution for on-site detection of CITES-listed shark species with shark fin products.

DNA barcoding of coastal ray-finned fishes in Vietnam.

DNA barcoding based on a fragment of the cytochrome c oxidase subunit I (COI) gene is widely applied in species identification and biodiversity studies. The aim of this study was to establish a comprehensive barcoding database of coastal ray-finned fishes in Vietnam. A total of 3,638 specimens were collected from fish landing sites in northern, central and southern Vietnam. Seven hundred and sixty-five COI sequences of ray-finned fishes were generated, belonging to 458 species, 273 genera, 113 families and 43 orders. A total of 59 species were newly recorded in Vietnam and sequences of six species were new to the Genbank and BOLD online databases. Only 32 species cannot be annotated to species level because difficulty in morphological identifications and their Kimura-2-Parameter (K2P) genetic distances to most similar sequences were more than 2%. Moreover, intra-specific genetic distances in some species are also higher than 2%, implying the existence of putative cryptic species. The mean K2P genetic distances within species, genera, families, orders and classes were 0.34%, 12.14%, 17.39%, 21.42%, and 24.80, respectively. Species compositions are quite different with only 16 common species among northern, central and southern Vietnam. This may attribute to multiple habitats and environmental factors across the 3,260 km Vietnamese coastline. Our results confirmed that DNA barcoding is an efficient and reliable tool for coastal fish identification in Vietnam, and also established a reliable DNA barcode reference library for these fishes. DNA barcodes will contribute to future efforts to achieve better monitoring, conservation, and management of fisheries in Vietnam.

A slender symbiotic goby hiding in burrows of mud shrimp Austinogebia edulis in western Taiwan.

The present study recorded the population of the goby fish (Perciformes: Gobiidae), Eutaeniichthys cf. gilli Jordan & Snyder, 1901, from the tunnel burrowed by the mud shrimp Austinogebia edulis Ngo-Ho and Chan, 1992 in a mudflat in Shengang and Wangong of Changhua County, western Taiwan. This finding is not only a new record of the genus in Taiwan, it is also the first record of this species in a mudflat near an industrial park. In total, 56 individuals of E. cf. gilli were collected from June 2016 to September 2018. Morphological traits of males and females were measured. The resin casting method trapped bodies of E. cf. gilli that were present in the tunnel burrow and proved that the fish inhabits burrows of the mud shrimp A. edulis. In addition, a species of snapping shrimp was also found in the same tunnel. Symbiotic interaction may occur between E. cf. gilli, A. eduli and the snapping shrimp. The China Coastal Current (CCC) runs along the coastlines of Japan, Korea, China, and reaches western Taiwan during the northeast monsoon period. The CCC, therefore, might play an important role in the biogeographic distribution of E. cf. gilli in the western Pacific Ocean. Since E. cf. gilli is listed in the Red List as an endangered species of Japan for many years, Taiwan waters may provide a refuge for this fish species warranting a broader investigation. Since Taiwan is some distance away from the previously recorded locations in Japan, Korea, the Yellow Sea, and the Bohai Sea, a phylogenic analysis is warranted for population and species differentiation in the future.

Two new deep-sea anglerfishes (Oneirodidae and Gigantactidae) from Taiwan, with synopsis of Taiwanese ceratioids.

Two new species of deep-sea anglerfishes are described on the basis of specimens collected from off northeastern Taiwan. Oneirodes formosanus sp. nov., based on one adult female, differs from its congeners in having a deep caudal peduncle (15.4% SL) and esca with a single simple, elongate, unbranched, internally pigmented, anterior escal appendage; a simple, elongate, posterior escal appendage; an elongate terminal escal papilla; and no medial and lateral escal appendages. Gigantactis cheni sp. nov., based on three adult females, differs from its congeners in having a series of unpigmented filaments at base of illicium; a black terminal elongated esca bearing numerous dermal spinules; relatively more jaws teeth with the outtermost ones relatively short. A synopsis of Taiwanese species of the suborder Ceratioidei is provided.

Two new species of the genus Ophichthus from the western central Pacific Ocean, with a redescription of Ophichthus megalops Asano, 1987 (Anguilliformes: Ophichthidae).

Two new species similar to Ophichthus megalops Asano, 1987 with dark-tipped anal fins, are described on the basis of one specimen of each species. Ophichthus semilunatus sp. nov. from northeastern Taiwan is characterized by having 176 total vertebrae, three rows of teeth on the maxilla, one + three supraorbital pores, two preopercular pores, a brownish anterior-nostril tube, and a blotch on the anterior margin of anus. Ophichthus brevidorsalis sp. nov. from New Caledonia is characterized by having two preopercular pores, one + three supraorbital pores, smaller eyes 2.7 in head, a short head 9.5% of total length, a long tail 59.8% of total length, a slightly short snout 19.4% of head, and 43 predorsal vertebrae. A redescription of O. megalops is provided based on the holotype and 18 specimens newly collected from Taiwan. Selected characters of all nine Ophichthus with a dark-tipped anal fin are provided. In addition, partial COI sequences of five species is provided.

Largescale mullet (Planiliza macrolepis) can recover from thermal pollution-induced malformations.

It is well known in aquaculture that hyperthermic perturbations may cause skeleton malformations in fish, but this phenomenon has rarely been documented in wild species. One rare location where thermal pollution has increased the proportion of malformed fish in wild population is in the waters near the Kuosheng Nuclear Power Plant in Taiwan. At this site, the threshold temperature and critical exposure time for inducing deformations have not been previously determined. In addition, it was unclear whether juvenile fish with thermal-induced malformations are able to recover when the temperature returns below the threshold. In the present study, juvenile largescale mullet (Planiliza macrolepis) were kept at temperatures ranging from 26°C and 36°C for 1-4 weeks, after which malformed fish were maintained at a preferred temperature of 26°C for another 8 weeks. The vertebrae bending index (VBI) of fish was increased after 2 weeks at 36°C, and deformed vertebral columns were detected by radiography after 4 weeks. However, malformations were not observed in groups kept at or below 34°C. Moreover, at the end of the recovery period, both the VBI and the vertebrae malformations had returned to normal. The results of this study may help to more precisely determine potential environmental impacts of thermal pollution and raise the possibility that the capacity for fish vertebrae to recover from the impacts of chronic thermal exposures may be an important consideration in marine fish conservation.

The freshwater snake eel genus Lamnostoma (Anguilliformes: Ophichthidae) in Taiwan, with description of a new species.

A review of the freshwater ophichthid eel genus Lamnostoma from Taiwan is provided with three species recognized. Lamnostoma mindora has been recorded in previous literature and its presence is confirmed. Two specimens of Lamnostoma polyophthalmum represent the first record in Taiwan. A new species, Lamnostoma taiwanense sp. nov., is described on the basis of two specimens collected from northeastern Taiwan. It can be distinguished by having 3 preopercular pores, higher number of teeth on lower jaw, and a series of white spots with hill-shaped papillae along the head. A key to all known species of Lamnostoma is provided.

The eel genus Macrocephenchelys (Anguilliformes: Congridae) in Taiwan, with description of a new species.

The congrid eel genus Macrocephenchelys in Taiwan is reviewed. Three species are recognized. Macrocephenchelys brachialis was originally described from Indonesia and is also known from Taiwan, Madagascar, and Vanuatu; it is common in Taiwan but known from few specimens elsewhere. Macrocephenchelys brevirostris was described from Taiwan, where it is common; its occurrence outside Taiwan is uncertain. Macrocephenchelys nigriventris sp. nov. is described here from 28 specimens collected in Taiwan. Macrocephenchelys brachialis is distinguished from the other two species by its more elongate body, more posterior dorsal-fin origin (behind tip of pectoral fin), shorter head (less than 10% total length), presence of a supratemporal pore, absence of fleshy papillae dorsally on the head, absence of sensory pits on the abdomen, and more than 170 vertebrae. Macrocephenchelys nigriventris is distinguished from M. brevirostris by the presence of a patch of black pigment around the anus and adjacent abdomen (absent in M. brevirostris), preanal length 24-28% total length (27-34% in M. nigriventris), and 128-135 vertebrae (147-154 in M. brevirostris). The only other species currently recognized is M. soela from Australia; it is distinguished from all the others by the more anterior origin of the dorsal fin, over the middle of the pectoral fin (vs. over or behind the tip of the pectoral fin).

Time series dataset of fish assemblages near thermal discharges at nuclear power plants in northern Taiwan.

Long-term time series datasets with consistent sampling methods are rather rare, especially the ones of non-target coastal fishes. Here we described a long-term time series dataset of fish collected by trammel net fish sampling and observed by an underwater diving visual census near the thermal discharges at two nuclear power plants on the northern coast of Taiwan. Both experimental and control stations of these two investigations were monitored four times per year in the surrounding seas at both plants from 2000 to 2017. The underwater visual census mainly monitored reef fish assemblages and trammel net samples monitored pelagic or demersal fishes above the muddy/sandy bottom. In total, 508 samples containing 203,863 individuals from 347 taxa were recorded in both investigations at both plants. These data can be used by ecologists and fishery biologists interested in the elucidation of the temporal patterns of species abundance and composition.

Description of A New Species of the Gudgeon Genus Microphysogobio Mori 1934 (Cypriniformes: Cyprinidae) from Guangdong Province, Southern China.

Shih-Pin Huang, I-Shiung Chen, Yahui Zhao, and Kwang-Tsao Shao (2018) Microphysogobio luhensis n. sp., a new cyprinid species, is described from the Rongjiang River in eastern Guangdong Province, China. Morphological characters and molecular evidence based on mitochondrial DNA Cytochrome b (Cyt b) and Cytochrome oxidase subunit I (COI) sequences were used to compare this new species with other related species from mainland China, Vietnam and Taiwan. The present molecular evidences revealed that this new species is closely related to M. kachekensis and M. yunnanensis. However, these three species can be well distinguished based on the number of small pearl-like papillae on their inside papillae, lip papillae shape, barbel length, barbel width and color pattern. Furthermore, the morphometric comparison between M. kachekensis and the poorly known species M. yunnanensis is also discussed in this study for the first time. In addition, a diagnostic key to all 14 valid species of Microphysogobio from southern mainland China, Hainan Island and Taiwan is also provided.