Phylogenetic Relationships among the True Porpoises (Cetacea: Phocoenidae)

Portions of the cytochrome b gene and control region of the mitochondrial DNA molecule were sequenced to investigate systematic relationships among the six extant species of true porpoises, (Cetacea: Phocoenidae). Phylogenetic analyses of mitochondrial cytochrome b sequences support a close relationship between Burmeister′s porpoise, Phocoena spinipinnis, and the vaquita, Phocoena sinus, and the association of these two species with the spectacled porpoise, Australophocaena dioptrica. The latter result is not in concordance with a recent morphological reclassification which groups A. dioptrica with Dall′s porpoise, Phocoenoides dalli, in the subfamily Phocoenoidinae. The molecular analysis found no support for this grouping. A dioptrica was originally described as a member of the genus Phocoena, and our results support returning it to that genus at this time. Finally, the data suggest that the tropical species Neophocaena phocaenoides, the finless porpoise, may represent the most basal member of the family. The control region sequences corroborated the relationships among the closely related taxa P. sinus, P. spinipinnis, and A. dioptrica, but were unable to resolve the deeper branches of the tree, probably as a result of a high level of saturation of these sequences.     

Development of tetranucleotide microsatellite loci for the finless porpoise (<Emphasis Type="Italic">Neophocaena phocaenoides</Emphasis>)

The finless porpoise, Neophocaena phocaenoides, is endemic to the coastal waters of the Indo-Pacific, ranging from the Persian Gulf to Japan. Nine tetranucleotide microsatellite loci were isolated from the finless porpoise (Neophocaena phocaenoides). Polymorphism of each locus was assessed in 39 unrelated individuals from the Yellow Sea and the South China Sea of the Chinese waters. The number of alleles per locus varied from 2 to 11. The ranges of observed and expected heterozygosity were 0.154–0.795 and 0.146–0.839, respectively. Cross-species amplification of these loci was tested in other cetacean species. These microsatellite markers described here will be suitable for population genetic studies of finless porpoises and other cetacean species.     

Isolation and characterization of microsatellite loci in the finless porpoise (Neophocaena phocaenoides)

Eight dinucleotide microsatellite loci were isolated from the finless porpoise (Neophocaena phocaenoides). Analysis of 30 individuals showed the number of alleles ranged from four to 21 with observed heterozygosity ranging from 0.300 to 0.833, and expected heterozygosity ranging from 0.437 to 0.932. Cross‐species amplification was tested in four other cetacean species. These microsatellite markers would be valuable tools for population genetic studies of finless porpoises and other cetacean species.     

Contextual impacts on individual and synchronous breathing rate variations in three captive odontocete groups

Breathing rates are often collected both in the wild and in captivity to inform on cetaceans' internal state. However, few studies have investigated the effect of various factors on this breathing rate. We investigated the variations of individual and synchronous breathing rates depending on individual features (species, sex, age), displayed behavior, social parameters (social grouping), and environmental parameters (diurnal variation, presence of enrichment, unusual events, and presence of visitors in three groups of captive odontocetes (Yangtze finless porpoises, Neophocaena asiaeorentalis asiaeorientalis, East‐Asian finless porpoises, Neophocaena asiaeorentalis sunameri, bottlenose dolphins, Tursiops truncatus). Both individual and synchronous breathing rates were the highest when animals engaged in energetic or social behaviors. Individual breathing rate decreased but synchronous breathing rate increased with the presence of enrichment. Both rates increased during unusual events (e.g., pool cleaning, presence of a diver in the pool, noise, transport) and when public was present for Yangtze finless porpoises. Finally, synchronous breathing rate increased for Yangtze finless porpoises when experiencing social separation. We suggest that individual and synchronous breathing rates are useful parameters to measure, both in wild and captive animals, to obtain information on their arousal/stress state. However, these rates should be interpreted with caution and should be used together with other parameters to allow more accurate inferences.     

Isolation and characterization of twelve polymorphic microsatellite markers in bottlenose dolphins (Tursiops truncatus)

We developed polymerase chain reaction primers for 12 dinucleotide microsatellite loci in the bottlenose dolphin, Tursiops truncatus. Seven markers were obtained after hybridization screening, and five following random genome sequencing. Orthologous positions were computed for nine markers on the bovine genome and for seven on the human genome. The markers are distributed across chromosomes and found in different types of DNA regions. All 12 loci are polymorphic for Tursiops. Five loci were also polymorphic in the related species Stenella frontalis and the more distantly related river dolphin, Inia geoffrensis, indicating these markers will be informative across the Delphinidae and other cetacean taxa.     

ABR frequency tuning curves in dolphins

Tone-tone masking was used to determine auditory brain-stem response tuning curves in dolphins (Tursiops truncatus) in a simultaneous-masking paradigm. The Q ₁₀ of the curves was as large as 16–19 in the frequency range 64–128 kHz. In the range 45–16 kHz, Q ₁₀ decreased proportionally to the frequency with the bandwidth of the curves being constant, about 3.5–4 kHz at the 10-dB level. Tuning curves below 45 kHz are supposed to reflect broad spectral bandwidth of the probe's effective part which is no longer than 0.5 ms, irrespective of actual probe duration. Tuning curves above 64 kHz are supposed to reflect the real frequency tuning of the dolphin's auditory system.Abbreviations ABR auditory brain stem response - AP action potential     

Molecular identification of small cetacean samples from Peruvian fish markets

In the last 60 years, incidental entanglement in fishing gears (so called by-catch) became the main cause of mortality worldwide for small cetaceans and is pushing several populations and species to the verge of extinction. Thus, monitoring and quantifying by-catches is an important step towards proper and sustainable management of cetacean populations. Continuous studies indicated that by-catches and directed takes of small cetaceans in Peru greatly increased since 1985. Legal measures banning cetacean takes, enforced in 1994 and 1996, ironically made monitoring highly problematic as fishers continue catching these animals but utilize or dispose of carcasses clandestinely. Hence, in locations where cetaceans are landed covertly or already butchered, molecular genetic methods can provide the only means of identification of the species, sex, and sometimes the population of each sample. Here, we generate and analyse a fragment of the mitochondrial DNA cytochrome b gene and 5 nuclear microsatellite markers from 182 meat and skin samples of unidentified small cetaceans collected at three Peruvian markets between July 2006 and April 2007. Our results, compared to past surveys, indicate that Lagenorhynchus obscurus, Phocoena spinipinnis, Tursiops truncatus, Delphinus capensis, and D. delphis continue to be caught and marketed, but that the relative incidence of P. spinipinnis is highly reduced, possibly because of population depletion. The small number of possible sampling duplicates demonstrates that a high monitoring frequency is required for a thorough evaluation of incidental catches in the area. A wide public debate on by-catch mitigation measures is greatly warranted in Peru.     

SNP discovery based on CATS and genotyping in the finless porpoise (Neophocaena phocaenoides)

Single nucleotide polymorphisms (SNPs) discovery and genotyping were performed for the finless porpoises (Neophocaena phocaenoides). About 202 comparative anchor tagged sequence primers derived from genomes of human, mouse and some other mammals were used to screen the finless porpoise population. Of the 51 SNPs discovered, 25 were further characterized with ideal genotyping primers and using fragment length discrepant allele specific PCR assay. This is the first report of SNP loci for the finless porpoise, which is helpful to provide some novel molecular markers and new genetic information relevant to the conservation and management of this endangered species.     

Splitting suckling data of bottlenose dolphin (Tursiops truncatus) neonates in human care into suckling bouts

This study presents a first approach to determine a suckling bout criterion interval (BCI) by applying a log_e frequency analysis to a dataset of Tursiops truncatus neonate feeding frequencies. The data were gathered by continuous observation on four calves 15–24 hr a day for the first 14 days postpartum. The study was conducted at the dolphinarium of the Kolmården Wild Animal Park, Kolmården, Sweden. Based on a total of 3,752 individual suckling intervals, a BCI of 107.7 sec was established. The relevance of this finding is discussed. Zoo Biol 22:477–488, 2003. © 2003 Wiley‐Liss, Inc.     

Captive‐born intergeneric hybrid of a Guiana and bottlenose dolphin: Sotalia guianensis×Tursiops truncatus

Bottlenose dolphins (Tursiops truncatus) and Guiana dolphin (Sotalia guianensis) live in sympatry along the Caribbean Coast of Central and South America and social interactions between these species have been described in the Caribbean Coast of Costa Rica, including sexual encounters. Here we examine and document the only known hybridization event between a male Guiana dolphin and a female bottlenose dolphin, in captivity at Oceanario Islas del Rosario (Colombian Caribbean), using photographic and genetic evidence from mitochondrial DNA markers and nuclear autosomal introns. Zoo Biol 29:647–657, 2010. © 2009 Wiley‐Liss, Inc.     

Reproductive seasonality of a recently designated bottlenose dolphin stock near Charleston,South Carolina,U.S.A

Reproductive seasonality of common bottlenose dolphins (Tursiops truncatus) can be affected by numerous ecological and behavioral factors. In 2009, stock boundaries were revised to recognize a Charleston Estuarine System Stock (CESS) of bottlenose dolphins in Charleston, South Carolina. The CESS is a well‐studied population with long‐term data collected from photo‐identification and stranding studies. From 2004 to 2008, a systematic mark‐recapture photo‐identification study was conducted in the Charleston Estuary to estimate population size of the CESS. Sightings data from this photo‐identification study coupled with strandings data (1993–2008) were analyzed to determine the reproductive seasonality of this local population. Both neonate sightings and strandings depicted a primary season of reproduction in the spring into early summer with a small peak in neonate sightings in early autumn, and were significantly different from circular uniform and Von Mises distributions (strandings: P < 0.01, V = 2.8644; sightings: P < 0.01, V = 3.2302). This study increases the knowledge of seasonal reproductive patterns of estuarine stocks of bottlenose dolphin stocks in the southeastern United States. The results will also help wildlife managers detect unusual neonate mortality events, and provide information about critical habitat relevant for evaluating and mitigating coastal development projects.     

Revision of the wobbegong genus <Emphasis Type="Italic">Orectolobus</Emphasis> from Japan,with a redescription of <Emphasis Type="Italic">Orectolobus japonicus</Emphasis> (Elasmobranchii: Orectolobiformes)

The wobbegong genus Orectolobus occurring from Japan and its adjacent waters was reviewed, and O. japonicus was redescribed using ten specimens including a syntype. Only one species, O. japonicus, was regarded as valid among three species previously recorded from Japan. Orectolobus maculatus had been erroneously described from Japan because of the past nomenclatural confusion with O. japonicus. The specimen called “Karakusa-oose,” which had been identified with O. ornatus, was regarded as an irregular form of O. japonicus. Orectolobus japonicus was distinguished from the other congeners by having no tubercles on the body, five to eight dermal lobes in the preorbital group, two distally notched lobes in the postspiracular group, no dermal lobes on lower jaw, nasal barbel with a branch, no supraocular knob, relatively high dorsal fins with usually concave posterior margins, a lower number of precaudal vertebrae and intestinal valve turns, saddles on the back without black borders and yellowish and variously shaped blotches, not forming white O-shaped spots.     

Maximum entropy model: Estimating the relative suitability of cetacean habitat in the northern Savu Sea,Indonesia

An understanding of cetacean distribution is necessary to gain insights into crucial ecological processes for species conservation management. However, cetacean habitat preference and distribution in the northern Savu Sea, Indonesia, are still poorly understood. We use maximum entropy modeling with five environmental predictors to describe habitat preference and distribution of seven cetacean species in the northern Savu Sea. Our study confirms that static predictors are the most important variables in explaining habitat preferences of seven cetacean species in the northern Savu Sea. Seasonally, each cetacean species has a different environmental preference. Globicephala macrorhynchus prefers the open nearshore areas adjacent to deep waters. Stenella attenuata is associated with nearshore habitats and higher productivity areas. Stenella longirostris prefers nearshore habitat during coastal upwelling events. Tursiops truncatus prefers nearshore sheltered habitat. Grampus griseus habitats are highly related to depth and steep gradients around the isobaths of 200–1,000 m. Feresa attenuata are associated with deep waters and cooler sea temperature. Pseudorca crassidens prefers protective bays with productive waters. This study provides important information for reviewing marine spatial plans of the northern Savu Sea, specifically on managing species fisheries interaction, optimizing surveillance, and regulating marine traffic.     

Eight polymorphic microsatellite loci for bottlenose dolphin and other cetacean species

We developed eight polymorphic microsatellite loci that can be used to elucidate population structure and aid management of bottlenose dolphins, Tursiops truncatus, in the northwest Atlantic. These loci averaged nine alleles, with no evidence for null alleles. Their cross‐species utility was examined in Cephalorhynchus commersonii, Delphinus delphis, Delphinapterus leucas, Eschrictius robustus, Globicephala macrorhynchus, Lagenorhynchus obliquidens, Orcinus orca, Steno bredanensis and Stenella clymene. On average, 75% of the loci were polymorphic in these species (range = 50–88%). Our results indicate that these loci will be useful for elucidating population structure of bottlenose dolphin as well as of other cetacean species.     

Development and characterization of polymorphic microsatellite loci in the endangered Yangtze finless porpoise (Neophocaena phocaenoides asiaeorientalis)

The finless porpoise (Neophocaena phocaenoides) is one of the smallest cetacean species widely distributed in the shallow coastal waters of the Indo-Pacific Oceans. The population size of the Yangtze subspecies (N. p. asiaeorientalis) has sharply decreased in the last two decades and access to objective data on its population structure and genetic diversity would be of great assistance for their proper management. Here we report on the isolation of nine polymorphic microsatellite using the “Fast Isolation by AFLP of Sequences Containing repeats” (FIASCO) protocol. Polymorphism was assessed using 30 porpoise individuals randomly sampled in the Yangtze River. The number of alleles per locus varies from 2 to 9, with an average value of 5.56, whereas the ranges of observed and expected heterozygosities were 0.300–0.633 (mean 0.496) and 0.473–0.804 (mean 0.659), respectively.     

Offshore and coastal common bottlenose dolphins of the western South Atlantic face‐to‐face: What the skull and the spine can tell us

The taxonomy of Tursiops truncatus in the western South Atlantic is not resolved. Two different hypotheses have been proposed: (1) offshore and coastal ecotypes with a parapatric distribution, and (2) two species, T. truncatus and T. gephyreus, living in sympatry. To test these hypotheses, we examined a total of 100 physically mature skulls and 35 vertebral columns from the suggested overlap zone in southern Brazil. In all skulls, 24 measurements, four alveoli counts and two categorical variables were analyzed. Vertebral formula was determined and five measurements were taken from selected vertebrae. Multivariate analyses were conducted for skull and vertebral data. Results revealed the presence of two well‐separated groups. Specimens of Group1 had smaller skulls and shorter body lengths, but more vertebrae, than Group2. The morphological characteristics of each group corresponded well with two ecotypes of common bottlenose dolphins reported in other ocean basins. Therefore, we assigned the specimens of Group1 to the offshore ecotype, and Group2 to the coastal ecotype. Differences in the geographic locations and ratio of strandings supported the parapatric hypothesis. The significant morphological differentiation observed suggests the presence of different subspecies, but an additional independent line of evidence is needed to hypothesize whether they represent different species.     

Factors influencing dolphin depredation in coastal fisheries of the northern Aegean Sea: Implications on defining mitigation measures

Dolphin interactions with coastal fisheries are of major concern, reportedly leading to gear damage, which increases the cost of coastal fishing globally and in the Mediterranean Sea. The aim of this study was to determine the effect that gear, target species, mesh size, depth, soaking duration, fishing area, and season have on net depredation frequency and to offer insights on possible mitigation solutions. From November 2013 to February 2016 we monitored 107 active coastal fishers in 22 ports of the northern Aegean Sea coastline, identified the main target species of the fishery and recorded the damages on gill nets and trammel nets caused by dolphins, mainly the common bottlenose dolphin (Tursiops truncatus). Quasi-binomial generalized linear models were used to determine the relationship between the examined factors and depredation frequency. The analysis revealed that the gears mostly depredated were gill nets and trammel nets with small mesh sizes, mainly targeting surmullet (Mullus surmuletus), red mullet (Mullus barbatus), common sole (Solea solea), European hake (Merluccius merluccius), and caramote prawn (Melicertus kerathurus). The probability of depredation was also significantly dependent on the fishing area.     

Parietal lobe variation in cercopithecid endocasts

In extant primates, the posterior parietal cortex is involved in visuospatial integration, attention, and eye‐hand coordination, which are crucial functions for foraging and feeding behaviors. Paleoneurology studies brain evolution through the analysis of endocasts, that is molds of the inner surface of the braincase. These may preserve imprints of cortical structures, such as sulci, which might be of interest for locating the boundaries of major cortical regions. Old World monkeys (Cercopithecidae) represent an interesting zoological group for evolutionary studies, because of their diverse ecologies and locomotor behaviors. In this study, we quantify parietal lobe variation within the cercopithecid family, in a sample of 30 endocasts including 11 genera and 17 species, by combining landmark‐based and landmark‐free geometric morphometric analyses. More specifically, we quantitatively assess variation of the parietal proportions based on landmarks placed on reliable anatomical references and of parietal lobe surface morphology through deformation‐based methods. The main feature associated with the cercopithecid endocranial variation regards the inverse proportions of parietal and occipital lobes, with colobines, Theropithecus, and Papio displaying relatively larger parietal lobes and smaller occipital lobes compared with cercopithecins. The parietal surface is anteroposteriorly longer and mediolaterally flatter in colobines, while longitudinally shorter but laterally bulging in baboons. Large parietal lobes in colobines and baboons are likely to be independent evolutionary traits, and not necessarily associated with analogous functions or morphogenetic mechanisms.     

Phylogenetic placement and population structure of Indo‐Pacific bottlenose dolphins (Tursiops aduncus) off Zanzibar,Tanzania, based on mtDNA sequences

Phylogenetic placement of bottlenose dolphins from Zanzibar, East Africa and putative population differentiation between animals found off southern and northern Zanzibar were examined using variation in mtDNA control region sequences. Samples (n= 45) from animals bycaught in fishing gear and skin biopsies collected during boat surveys were compared to published sequences (n= 173) of Indo‐Pacific bottlenose dolphin, Tursiops aduncus, from southeast Australian waters, Chinese/Indonesian waters, and South African waters (which recently was proposed as a new species) and to published sequences of common bottlenose dolphin, Tursiops truncatus. Bayesian and maximum parsimony analyses indicated a close relationship between Zanzibar and South African haplotypes, which are differentiated from both Chinese/Indonesian and Australian T. aduncus haplotypes. Our results suggest that the dolphins found off Zanzibar should be classified as T. aduncus alongside the South African animals. Further, analyses of genetic differentiation showed significant separation between the T. aduncus found off northern and southern Zanzibar despite the relatively short distance (approximately 80 km) between these areas. Much less differentiation was found between southern Zanzibar and South Africa, suggesting a more recent common evolutionary history for these populations than for the northern and southern Zanzibar populations.     

Biometric variability of Hadwenius tursionis (Marchi, 1873) (Digenea,Campulidae) from the intestine of the bottlenose dolphin Tursiops truncatus (Montagu, 1821)

The species discrimination in the family Campulidae is largely based on morphometric characters (absolute measurements and ratios). To assess the variability of this characters we have studied the campulid species Hadwenius tursionis from four Mediterranean bottlenose dolphins Tursiops truncatus from the Western Mediterranean. In H. tursionis most absolute measurements differed significantly across the infrapopulations, showing high coefficients of variation. Only egg dimensions appeared to be fairly conservative. Body ratios were less variable than absolute measurements, but growth patterns did vary significantly between the infrapopulations studied. None of the ratios previously used in relation to other species of the family Campulidae indicated either isometric or allometric growth in this case. Only the ratios concerning the size of the gonads and the shape of the gonads and suckers showed isometry. It is concluded that absolute measurements and ratios should be used with caution in relation to the separation of species of the family Campulidae unless their intrinsic variability can be established beforehand.