Biology and life history of Dabry's sturgeon, Acipenser dabryanus, in the Yangtze River

Dabry's sturgeon, Acipenser dabryanus, is a relatively small (130 cm, 16 kg) and now rare sturgeon restricted to the Yangtze River Basin. It behaves as a resident freshwater fish, does not undertake long distance migrations (except for spawning), and lives in a variety of habitats. It historically spawned in the upper Yangtze River, but the spawning sites are unknown. Acipenser dabryanus reaches maturity earlier than do other Chinese sturgeons, which gives the species aquaculture potential, and artificial spawning has been carried out. However, the native population in the Yangtze has sharply declined in the last two decades due to overfishing, pollution and habitat alteration and destruction, especially since the construction of the Gezhouba Dam, which was built in 1981 across the Yangtze River at Yichang, Hubei Province. Since 1981, Dabry's sturgeon rarely occurs below the Gezhouba Dam because downstream movements are blocked. Clearly, conservation of Dabry's sturgeon must be emphasized. Conservation methods may include protecting habitats, controlling capture and stock replenishment.     

Twenty‐four novel microsatellites for the endangered Chinese sturgeon (Acipenser sinensis Gray, 1835)

The Chinese sturgeon (Acipenser sinensis) is an endemic and critically endangered species in China. In this study, a total of 24 polymorphic microsatellite loci were isolated and characterized using Illumina sequencing for A. sinensis. The number of alleles (Na) per locus ranged from 2 to 6 (mean 4.04), mean expected heterozygosities (He), Shannon‐Wiener Diversity Indices (SW) and evenness (E) per locus ranged from 0.235 to 0.786 (mean 0.62), from 0.396 to 1.608 (mean 1.13), and from 0.060 to 0.213 (mean 0.13), respectively. Exact tests revealed that nine loci showed significant (P < 0.01) deviation from Hardy‐Weinberg equilibrium (HWE). Cross amplification was tested in congeneric species A. schrenskii, A. baerii, A. dabryanus and Huso dauricus. The new microsatellite markers described herein will be useful for further studies on genetic variation, parentage analysis, and conservation management.     

The moult cycle of the terrestrial isopod Armadillo officinalis Duméril, 1816 (Crustacea: Isopoda: Oniscidea)

The present work focuses on the moult cycle of Armadillo officinalis. For a 100‐day period, 134 animals were observed and routinely examined with the aim of detecting distinctive morphological characters in the several stages and substages of the moult cycle and of disclosing their duration. Statistical tests and Poisson regression models with robust standard errors were used to investigate differences and relationships between moult and the size and gender of the animals. The appearance of the calcium carbonate deposits on the pereon sternites during the premoult stage was documented in detail, and three main substages were identified. The average duration of the premoult and of the biphasic ecdysis was about 12 and 1.5 days, respectively. This observation period, however, did not allow to establish a determined average duration of the intermoult stage, which was extremely variable. This stage lasted for 2 months or more in most of the cases observed, but about 1‐month‐long intermoult stages were also recorded. No statistically significant association was found between the number of moults and gender and size of the animals.     

基于高通量测序的达氏鲟微卫星标记筛选

达氏鲟(Acipenser dabryanus)是我国特有的珍稀鱼类,主要分布在长江上游干支流。由于人类活动的影响,其种群数量急剧下降,被列为国家Ⅰ级重点保护动物、IUCN红色名录极危(CR)物种。本研究针对当前达氏鲟群体的濒危现状,应用微卫星标记开展达氏鲟保护遗传学研究。通过高通量测序成功筛选出25个微卫星位点,采用18尾野生个体和30尾人工繁殖个体对其多样性进行了检验,结果表明,25个位点共检测出181个等位基因,每个位点的等位基因数(A)为4~11(平均值7.2),观测杂合度(HO)为0.160~1.000(平均值0.744),期望杂合度(HE)为0.346~0.875(平均值0.727)。所有位点均不偏离"Hardy-Weinberg"平衡(P0.05),各位点间也无连锁不平衡现象。除了其中一个位点以外,所有位点的多态信息含量(PIC)均大于0.5,其多态性较好。本次筛选的微卫星位点将有助于达氏鲟资源保护和群体遗传研究。     

Microsatellite markers for the endangered root holoparasite Dactylanthus taylorii (Balanophoraceae) from 454 pyrosequencing

? Premise of the study: Microsatellite loci were isolated and developed as polymorphic markers for the New Zealand endemic root holoparasite Dactylanthus taylorii for use in population and conservation genetics studies. ? Methods and Results: Shotgun 454 pyrosequencing was performed on genomic DNA pooled from three individuals of D. taylorii. From 61709 individual sequence reads, primers for 753 microsatellite loci were developed in silico and 72 of these were tested for consistent amplification and variability. Ten microsatellite loci were found to be polymorphic and consistently scorable when screened in 44 individuals from five geographically distant populations. The number of alleles per locus ranged from four to 16 with an average of 9.7, and average observed heterozygosity per locus was between 0.182 and 0.634. ? Conclusions: These polymorphic microsatellite markers establish an important resource for ongoing conservation initiatives and planned population genetic studies of D. taylorii.     

Rapid microsatellite marker development in the endangered neotropical freshwater turtle Podocnemis lewyana (Testudines: Podocnemididae) using 454 sequencing

Using high throughput sequencing we obtained a large number of microsatellites from Podocnemis lewyana, an endemic turtle from northwestern South America. We used 454 Genome Sequence FLX platform of sheared genomic DNA from randomly sampling approximately 17% of the haploid genome. We identified 86,501 reads (8.1% of all reads) that contained our definition of microsatellite loci. AC and TC were the most abundant motifs in the P. lewyana genome. TGC and AAAC were most abundant tri and tetra-nucleotide motifs respectively. 72.7% of microsatellite reads had flanking sequence regions suitable for primer design and PCR amplification. We validated the identified potentially amplifiable loci (PAL) and tested for polymorphism by selecting 15 loci corresponding to tetranucleotides. Twelve loci showed polymorphism in eight individuals. These findings demonstrates that microsatellite detection using next-generation sequencing is an efficient way of getting a lot of loci for listed taxa and in turn will have a large impact on future genetic studies aiming to understand and implement conservation plans for this highly threatened freshwater turtle.     

Expression analysis of cathelicidin and NK‐lysin in Dabry’s sturgeon (Acipenser dabryanus)

Antimicrobial peptides (AMPs) are a conserved component of the innate immune response in many species. In the present study, the cDNA sequences encoding two AMPs (cathelicidin and NK‐lysin, comprising 1,576 and 606 bp, respectively) were cloned from Dabry's sturgeon (Acipenser dabryanus). Phylogenetic analysis demonstrated that the two AMPs were clustered together with homologous protein sequences from other fish. NK‐lysin was highly expressed during early embryonic development, suggesting maternal transmission. Tissue distribution analysis showed that cathelicidin had the highest expression in the liver and NK‐lysin was most abundantly expressed in the spleen. In response to Poly I:C treatment, the expression of cathelicidin was upregulated at 12 and 24 hr post induction (hpi), but downregulated at 72 hpi. NK‐lysin mRNA expression increased after treatment with Poly I:C, reaching a peak at 24 hpi. Lipopolysaccharide treatment also induced the expression of two antimicrobial peptide genes. Lipopolysaccharide treatment significantly upregulated the expression of cathelicidin at 6, 24, and 48 hpi, and upregulated NK‐lysin expression at 6 and 12 hpi. These results suggested that two AMPs could participate in the immune response induced by poly I:C or LPS stimulation.     

Microsatellite development for the relictual conifer Araucaria araucana (Araucariaceae) using next-generation sequencing

? Premise of the study: In this study, the 454 GS-FLX genome sequence system was used for the identification and characterization of microsatellites in Araucaria araucana, one of the most important and endangered species of Chilean and Argentinean native forests. ? Methods and Results: A total of 35876 reads were identified, 96% of which were within the size range selected for further analysis. Of these, 1563 contained a microsatellite insert suitable for primer design. Ten simple sequence repeat (SSR) markers provided easily interpretable patterns and were used to evaluate the genetic diversity in four populations of the species. The 10 microsatellites showed high polymorphism levels, with a total of 99 alleles and 32 private alleles. The observed heterozygosity was high and ranged from 0.513 to 0.723. ? Conclusions: The primers presented in this study display high genetic diversity and may provide useful information for the design of conservation strategies in Araucaria araucana.     

Effects of stocking density during live transportation on haematological parameters of Siberian sturgeon (Acipenser baerii,Brandt, 1869)

In this study, we investigated the effects of different stocking densities water quality and blood parameters during the transportation of the Siberian sturgeon (Acipenser baerii). Experiments were carried out in high-density polyethylene tank with three different stocking densities (50, 100 and 150 kg/m³) for 20 h. Ammonium nitrogen (NH₄-N) and nitrite nitrogen (NO₂-N) were measured in the water samples. The erythrocyte, leucocyte, haematocrit (HCT), haemoglobin (Hb), cortisol, and sodium ion (Na⁺) were measured in blood samples. Ammonium nitrogen and nitrite nitrogen concentrations in the water have increased in parallel with the stocking density depending on the time. In the highest stocking density, the maximum levels of NH₄-N and NO₂-N at the 16^th h reached 2.64 mg/L and 4.74 mg/L, respectively. Erythrocyte, leucocyte, HCT, and Hb values did not differ significantly between the experimental groups (p > .05). The results showed that fish could be transported safely for 20 h in 15℃ water temperature at 50 kg/m³ stocking density; however, stocking density of 100 kg/m³ and over could threaten fish welfare and health as from 16^th h.     

Metabolic changes in droplet vitrified semen of wild endangered Persian sturgeon Acipenser persicus (Borodin, 1997)

Comparative quantitative metabolite profiling can be used for better understanding of cell functions and dysfunctions in particular circumstances such as sperm banking which is an important approach for cryopreservation of endangered species. Cryopreservation techniques have some deleterious effects on spermatozoa which put the obtained results in controversy. Therefore, in the present study, quantitative ¹H NMR (Nuclear Magnetic Resonance) based metabolite profiling was conducted to evaluate metabolite changes related to energetics and some other detected metabolites in vitrified semen of critically endangered wild Acipenser persicus. The semen was diluted with extenders containing 0, 5, 10, and 15 μM of fish antifreeze protein (AFP) type III as a cryoprotectant. Semen-extenders were vitrified and stored for two days. Based on post-thaw motility duration and motility percentage assessments, two treatments with 10 μM and 0 μM of AFP had the highest and the lowest motility percentages respectively and they were objected to ¹H NMR spectroscopy investigations in order to reveal the extremes of the metabolites dynamic range. Univariate (ANOVA) and multivariate (PCA) analysis of the resulting metabolic profiles indicated significant changes (P > 0.05) in metabolites. The level of some metabolites including acetate, adenine, creatine, creatine phosphate, lactate, betaine, sarcosine, β-alanine and trimethylamine N-oxide significantly decreased in vitrified semen while some others such as creatinine, guanidinoacetate, N, N-dimethylglycine, and glycine significantly increased. There were also significant differences between vitrified treatments in levels of creatine, creatine phosphate, creatinine, glucose, guanidinoacetate, lactate, N, N-dimethylglycine, and glycine, suggesting how fish AFP type III can be effective as a cryoprotectant.     

Microsatellite DNA variation in Atlantic sturgeon (Acipenser oxyrinchus oxyrinchus) and cross-species amplification in the Acipenseridae

Overharvest and habitat alteration have led toa collapse of most commercial Atlantic sturgeon(Acipenser oxyrinchus oxyrinchus)fisheries while pushing the species to rarityor extirpation in most of its historical range. A biologically sound conservation program forthis species requires knowledge of its geneticdiversity and of the evolutionary relationshipsamong geographic populations. To address theseresearch needs, six microsatellite loci wereisolated from A. o. oxyrinchus. Pedigreeanalysis suggested that all are inherited in acodominant Mendelian pattern. The six lociwere tested in ten additional sturgeon speciesfrom three genera and three apparent ploidylevels (4n, 8n, 16n). Approximately 70% ofsuccessful locus-species amplifications werepolymorphic. Polysomy was observed most oftenin 8n and 16n species. Genetic diversity andpopulation structure of A. o. oxyrinchuswere assayed using three polymorphic Aoxmarkers and four markers developed from lakesturgeon (A. fulvescens). A. o.oxyrinchus were sampled from the AltamahaRiver, Georgia, USA north to the St. LawrenceRiver, Quebec, Canada. Gulf sturgeon, A.o. desotoi, were sampled from the SuwanneeRiver, Florida, USA, to assess differentiationbetween the subspecies. Seventy-seven alleleswere observed to segregate into uniquemultilocus genotypes for each of the 392individuals assayed. Mean diversity wasgreatest in the Chesapeake Bay (9.7 alleles perlocus) and Delaware River (7.4 alleles perlocus) collections, and lowest in the St.Lawrence River (4.6 alleles per locus). Meanheterozygosity across seven loci ranged from44.3% (St. Lawrence River) to 62.6% (Altamaha River). Significant allelic heterogeneity wasobserved in 82% of pairwise comparisons aswell as a global test (p < 0.0001) for A.o. oxyrinchus collections. Genetic distancesuggests the presence of at least sixsubpopulations in A. o. oxyrinchus: St.Lawrence River, St. John River, Hudson River,Delaware River, Albemarle Sound, and AltamahaRiver. Genetic and geographic distances werepositively correlated (r = 0.57, p < 0.03) amongA. o. oxyrinchus, suggesting isolation bydistance and philopatry. Hierarchical genediversity analysis indicated significantgenetic population structure at every level. Maximum likelihood assignment tests correctlyassigned individual fish to collection with ahigh rate of success (mean = 87.5%); this andother lines of evidence indicated that theChesapeake Bay collection represents a mixedpopulation of sub-adult sturgeon from northernand southern Atlantic coast populations. Population structure was correlated with thatsuggested by earlier mitochondrial (mt) DNAanalyses. Significant diversity was observedbetween two Canadian populations from whichonly a single mtDNA haplotype has beenreported.     

Development and characterization of eleven microsatellite markers for an endangered cavefish (Triplophysa rosa Chen and Yang, 2005) using 454 sequencing

Triplophysa rosa is an endangered cave‐dwelling and endemic fish species found only in Chongqing, southwestern China. The genetic data available for this species is very limited. Polymorphic microsatellites were identified in the genome of T. rosa using 454 sequencing. Of the 145 loci screened, 106 were amplified successfully and 11 showed polymorphic patterns. The number of alleles ranged from 2 to 6, and the observed and expected heterozygosity varied from 0.061 to 0.543 (mean = 0.349) and from 0.248 to 0.789 (mean = 0.551), respectively. The polymorphic information content (PIC) ranged from 0.215 to 0.744 (mean = 0.486), indicating moderate levels of polymorphism. In addition, cross‐species amplification was tested for the 106 loci in Triplophysa moquensis, which showed a high level of transferability (76.4%), implying that the microsatellite markers developed here could be used effectively for other closely related species.     

Identification of interleukin‐16 (IL‐16) and interleukin‐17D (IL‐17D) genes from Dabry's sturgeon (Acipenser dabryanus)

Dabry's sturgeon (Acipenser dabryanus) represents an ancient Actinopterygian lineage that are termed “living fossils”. Many diseases have been found in Dabry's sturgeon. In the present study, genes encoding interleukin (IL)‐16 and IL‐17D in Dabry's sturgeon were identified by RNA‐sequencing. Phylogenetic tree analysis suggested that they clustered together with the corresponding pro‐IL‐16 proteins and IL‐17D proteins from other fish. Sequence analysis revealed that IL‐17D protein was more conserved than pro‐IL‐16. Dabry's sturgeon pro‐IL‐16 contains four putative PDZ domains and do not include signal peptides, while IL‐17D only possesses signal peptides (1–25 aa). The expression patterns of IL‐16 and IL‐17D genes were investigated in Dabry's sturgeon to reveal their functions in disease. The expression level of IL‐16 showed no significant changes in embryos; however, the high expression level of IL‐17D at 0–14 hpf (hours post fertilization) implied the existence of maternal expression in the oocyte and an association with embryonic development. Tissue distribution analysis revealed that IL‐16 and IL‐17D proteins have potential functions in immune and non‐immune tissue compartments. IL‐16 and IL‐17D had different fold changes in primary spleen leukocytes after polyinosinic:polycytidylic acid (poly I:C) and lipopolysaccharide (LPS) administration, which suggested that IL‐16 has a stronger antiviral capability compared with its antibacterial response, and IL‐17D has a stronger antibacterial capability compared with its antiviral response. IL‐16 showed an earlier response to virus compared with IL‐17D, and IL‐17D showed earlier and shorter response to bacteria compared with IL‐16. Our findings suggested the roles of IL‐16 and IL‐17D in Dabry's sturgeon, and provided the theoretical basis for the prevention and control of diseases of Dabry's sturgeon.     

Development of the skull and pectoral girdle in Siberian sturgeon,Acipenser baerii,and Russian sturgeon,Acipenser gueldenstaedtii (Acipenseriformes: Acipenseridae)

The head is considered the major novelty of the vertebrates and directly linked to their evolutionary success. Its form and development as well as its function, for example in feeding, is of major interest for evolutionary biologists. In this study, we describe the skeletal development of the cranium and pectoral girdle in Siberian (Acipenser baerii ) and Russian sturgeon (A. gueldenstaedtii ), two species that are commonly farmed in aquaculture and increasingly important in developmental studies. This study comprises the development of the neuro‐, viscero‐ and dermatocranium and the dermal and chondral components of the pectoral girdle, from first condensation of chondrocytes in prehatchlings to the early juvenile stage and reveals a clear pattern in formation. The otic capsules, the parachordal cartilages, and the trabeculae cranii are the first centers of chondrification, at 8.4mm TL. These are followed by the mandibular, then the hyoid, and later the branchial arches. Teeth form early on the dentary, dermopalatine, and palatopterygoid, and then appear later in the buccal cavity as dorsal and ventral toothplates. With ongoing chondrification in the neurocranium a capsule around the brain and a strong rostrum are formed. Dermal ossifications start to form before closure of the dorsal neurocranial fenestrae. Perichondral ossification of cartilage bones occurs much later in ontogeny. Our results contribute data bearing on the homology of elements such as the lateral rostral canal bone that we regard homologous to the antorbital of other actinopterygians based on its sequence of formation, position and form. We further raise doubts on the homology of the posterior ceratobranchial among Actinopteri based on the formation of the hyoid arch elements. We also investigate the basibranchials and the closely associated unidentified gill‐arch elements and show that they are not homologous. J. Morphol. 278:418–442, 2017. © 2017 Wiley Periodicals, Inc.     

Microsatellite development for an endangered riparian inhabitant, Lilaeopsis schaffneriana subsp. recurva (Apiaceae)

? Premise of the study: Microsatellite markers were developed and characterized to evaluate genetic diversity and population structure in Lilaeopsis schaffneriana subsp. recurva, an endangered species endemic to wetlands dispersed throughout southeastern Arizona, USA, and northern Sonora, Mexico. ? Methods and Results: Eight loci (one of which was monomorphic) were developed and characterized in 48 individuals from two populations. The total number of alleles was 35, ranging from one to 10 per locus. Many of the primers amplified in L. carolinensis, L. chinensis, L. masonii, L. occidentalis, L. schaffneriana subsp. schaffneriana, Oxypolis fendleri, and Eryngium lemmonii. ? Conclusions: Development of these novel microsatellite loci will facilitate a deeper understanding of genetic diversity, mode of reproduction, and population structure not only in L. schaffneriana subsp. recurva, but also in apiaceous relatives.     

The skull of the Chinese sturgeon,Acipenser sinensis (Acipenseridae)

The Chinese sturgeon, Acipenser sinensis, is a large member of Acipenseridae now found only in the Yangtze River and the Yellow and East China seas. The goal of this paper was to describe the skull of A. sinensis in the context of recent anatomical and systematic studies of sturgeons. Five specimens (354–670 mm standard length) were prepared as skeletons. The left and right parietals and frontals are broadly separated by a median fontanelle. The lateral‐most lateral extrascapular variably supports the confluence of the supratemporal, occipital and trunk lateral lines. There is no distinct ventral supraorbital process as found in other sturgeons. The anterodorsal portion of the snout is unique among Acipenseridae by having a single large anamestic dorsal rostral bone instead of a series of separate dorsal rostral bones. There are 0–2 lateral rostral bones on each side positioned anterior to but not in contact with the horizontal arm of the jugal. The dorsal surface of the neurocranium lacks a pineal opening, and its anterior tip is sharply pointed in the smaller specimens examined and gently curved in larger specimens. The anteromedial arm of the palatopterygoid is broad relative to other acipenserids. These new morphological data are discussed and compared among Acipenseridae.     

Atlantic sturgeon (Acipenser oxyrinchus oxyrinchus Mitchill, 1815) early life stage consumption evidenced by high-throughput DNA sequencing

Predation on early life stages of Atlantic Sturgeon Acipenser oxyrinchus oxyrinchus (ATS) may be a constraint to species recovery. Due to the difficulty in assessing consumption of early life stages with traditional diet analysis methods, we pursued an alternative DNA-based approach. We extracted total gut content from gastrointestinal tracts of 23 fish species (593 samples) within the tidal-fresh Pamunkey River fish assemblage collected from known ATS spawning grounds during prime spawning periods (September-October) in 2016. High-throughput DNA sequencing was used to amplify two markers for each sample: mitochondrial cytochrome c oxidase I (COI) and nuclear 18S ribosomal RNA gene. DNA sequences were compared to custom, SILVA 132, and NCBI databases. Results showed presence of ATS DNA in 22 samples (4%) across multiple native and nonnative tidal-fresh fishes. The highest percentage of consumption occurred in samples from Common Carp Cyprinus carpio (11.5) and Striped Bass Morone saxatilis (12.5). Six percent of Blue Catfish Ictalurus furcatus samples had target DNA. Considering there were no bony structures or tissue resembling ATS during morphological evaluation, DNA detections were likely from partially-fully digested eggs or early developing days-old larvae. High-throughput sequencing is capable of detecting consumption of ATS.