New markers for linkage analysis of X-linked hypophosphataemic rickets

Three polymorphic markers have been used to improve the genetic map of the region Xp22.1-p22.2, which contains the HYP (hypophosphataemic rickets) locus. DXS365 gave no recombinants with HYP, with a peak Lod score of 5.4 at = 0.0. A microsatellite marker mPA274 was derived for the DXS274 locus; it detects five alleles with a polymorphism information content of 0.55. Combining information from this microsatellite and the original DXS274 marker, probe CRI-L1391, the peak Lod score for DXS274 against HYP was 9.6 at = 0.02. A microsatellite associated with the DXS207 locus (mPA207) gave a peak lod score against HYP of 4.7 at = 0.14. A consideration of key recombinants and multilocus analysis suggests the gene order: Xpter-DXS207-DXS43-DXS197-(DXS365, HYP)-DXS274-DXS41-Xcen.     

Coexistence of coral reef fishes — a lottery for living space

Synopsis Data are summarised from studies of two reef fish communities — pomacentrids territorial on rubble patches, and fishes resident in small isolated colonies of coral. In each case there is evidence that availability of living sites limits numbers of fishes, and that similar species of fish use the same kinds of spaces. Priority of arrival as recruits, rather than subtle differences in requirements or competitive abilities of adults, appears to determine which species holds each site. Faced with a limited and patchy supply of living space, most reef fishes are sedentary as adults, and produce frequent clutches of pelagic larvae over extended breeding seasons In this way they maximise their chances of getting offspring into suitable living sites as such sites appear. It is argued that by adopting this strategy, reef fishes are preadapted for forming inter-specific lotteries for living space if several species with similar requirements occur together. Such lotteries among similar species may be a feature common to many reef fish communities, and may explain the typically high within-site diversity found in them.This paper forms part of the proceedings of a mini-symposium convened at Cornell University, Ithaca, N.Y., 18–19 May 1976, entitled Patterns of Community Structure in Fishes (G. S. Helfman, ed.).     

Visual and lenticular pigments in the eyes of demersal deep-sea fishes

We report on the lens pigmentation and visual pigments of 52 species of demersal deep-sea fishes caught at depths ranging from 480 m to 4110 m in the Porcupine Seabight and Goban Spur area of the North-eastern Atlantic. Only one species, caught between 480 and 840 m, had a lens with large amounts of pigment, consistent with the hypothesis that heavily pigmented lenses in deep-sea fish serve to enhance the contrast of bioluminescent signals by removing much of the background radiance, which is only visible to fish living shallower than 1000 m. Low concentrations of lens pigmentation were also observed in a further two species (Rouleina attrita and Micromesisteus poutassou). The retinae of all species except five, contained only a single visual pigment, as determined by microspectrophotometry of individual rods, and/or spectrophotometry of retinal wholemounts and retinal extracts. Those fishes caught between 500 m and 1100 m had wavelengths of peak sensitivity (_max) ranging from 476 nm to 494 nm, while most fish living below 1100 m tended to be more conservative with (_max) values ranging from 475 nm to 485 nm. The only exceptions to this were three deep-living species caught between 1600 m and 2000 m whose retinae contain abnormally short-wave sensitive visual pigments (Cataetyx laticeps — _max 468 nm; Alepocephalus bairdii — _max 467 nm; Narcetes stomias _max 472 nm), suggesting adaptation for the detection of short-wave bioluminescence.     

Have fishes had their chips? The dilemma of threatened fishes

Synopsis The conservation status and factors threatening fishes worldwide are reviewed in order to introduce a series of one-page articles on Threatened fishes of the world, and to encourage the incorporation of information on threatened fishes into international conservation programmes. Information on fish extinction and threat rates are compared with those of other animal groups, and the unique characteristics of fish conservation problems are highlighted. At present 979 species of fishes are listed as threatened in the IUCN Red List and at least 36 species and three subspecies are listed as recently extinct. It is argued that these figures are probably gross underestimates and that they may mislead conservation authorities and resource users about the seriousness of the situation. Freshwater fishes may be the most threatened group of vertebrates after the Amphibia. Urgent action is required to save many narrowly endemic, stenotopic species from extinction, especially in Africa, Asia and South America. The conservation of common species that drive essential ecological processes is also important. Anthropogenic pressures, especially habitat degradation, the introduction of invasive species and pollution, on inland and coastal waters are particularly severe and many major fish communities are threatened with elimination throughout the world. The conservation of marine fishes is complicated by the fact that it is difficult to ascertain their rarity. The importance of the retention of genetic variation is highlighted, and both orthodox and innovative conservation measures are encouraged. Further research on minimum viable populations, genetics, and the factors that cause fishes to become vulnerable to extinction, is urgently required.Invited editorial     

The relationship between ‘labile soil phosphorus’ and the aluminium and iron-bound phosphorus in tropical soils

Summary When millet was grown in short-term pot experiments in the greenhouse, in the red-clay and sand-veld soils of Southern Rhodesia and the red clay loams of Uganda, a very close correlation was obtained between labile soil phosphorus and the aluminium- and iron-bound phosphate in these soils. A large increase in labile soil phosphorus was obtained when millet was grown in Uganda soils that had been stored in the air-dry condition for 15 weeks, and a greater increase after 24 weeks. The increase is attributed to the mineralisation of soil organic phosphorus. The maximum temperature used to dry the soils had no effect on the labile soil phosphorus values obtained.     

Biological chromatology. The laws of colour and design in nature

Summary Biochromatology can be defined as the study of the relationships between colours, and between colours and design in nature. Certain laws concerning biochromatics can be formulated in the terminology of the Colour Circle. One of them is that planes in warm colours and planes in cold colours never adjoin. Another law is that design is never polychromatic. It seems that the observed biochromatical facts can be explained with the help of the principle optimal manifestation of colour, which in turn is based on the formative principles of matter itself.     

Length–weight relationships of five fish species associated with krill fishery in the Atlantic sector of the Southern Ocean

Length–weight relationships (LWRs) of five fish species commonly associated with Antarctic krill fishery, were determined. Samples were collected with Chinese krill trawler (codend mesh size 2 cm) in the Atlantic sector of the Southern Ocean from January to August 2016. Data on LWRs and the relationships between weight and standard length as well as weight and total length of those species were updated for the database of FishBase. Those data on fish species derived from Antarctic krill fishery will be very helpful in understanding the interaction between krill fishery and the associated fish community.     

Cystic fibrosis with three mutations in the cystic fibrosis transmembrane conductance regulator gene

Summary Three mutations in the cystic fibrosis transmembrane conductance regulator (CFTR) gene were discovered in a pancreas-insufficient patient with cystic fibrosis (CF) who displayed an uncommon combination of almost normal chloride concentration in sweat tests and typical symptoms of gastrointestinal and pulmonary disease. The R553Q mutation was found on the maternal F508-CFTR gene. Codon 553 is located within a consensus motif of the ATP-binding cassette transport proteins at a less conserved position. Other members of this protein superfamily contain a glutamine instead of arginine at the homologous position, suggesting a modulating rather than disease-causing role of the R553Q mutation in CFTR. The amplification refractory mutation system did not detect the R553Q mutation in a further 65 normal, 113 F508, and 91 non-F508 CF chromosomes. The index case carried the R553X nonsense mutation on the paternal chromosome. The R553X mutation was present on a further 9 out of 86 German nonF508 CF chromosomes linked with the XV2c-KM19Mp6d9-J44-GATT haplotypes 2-2-2-1-1 and 1-1-2-1-2. The location of R553X on separate haplotypes including both alleles of the intragenic GATT repeat suggests an ancient and/or multiple origins of the R553X mutations. The association of the genotype of the CFTR mutation and the clinical phenotype was assessed for the patients carrying the related genotypes F508/F508 (n = 80), F508/R553X (n = 9) and F508-R553Q/R553X (n = 1). In compound heterozygotes, the median chloride concentration in pilocarpine iontophoresis sweat tests was significantly lower than in the F508 homozygotes (P < 0.01). The patient groups were significantly different with respect to the distributions of the centiles for height (P < 0.001) and weight (P < 0.01) as the most sensitive predictors of the course and prognosis in CF. Growth retardation was more pronounced in the compound heterozygotes.     

‘Threatened Fishes of The World’ Series, an Update

The series of one-page articles on the Threatened fishes of the world was launched in 1995 (Bruton 1995, Moyle & Moyle 1995). Since then ichthyologists and fish biologists throughout the world have contributed 97 articles (Environmental Biology of Fishes vol. 43–57, Table 1). In 15 volumes of the journal 37 families have been so far included. The largest number of contributions was on species in the family Cyprinidae (23) followed by Galaxiidae (8). Eighty-four contributions have been on freshwater, seven on estuarine and six on marine fish species (Table 2).     

Density-habitat relationships of mangrove creek fishes within the southeastern saline Everglades (USA), with reference to managed freshwater releases

The Comprehensive Everglades Restoration Plan aims to make considerable changes to the quantity, quality, and timing of freshwater delivery to the southeastern saline Everglades (SESE), a mangrove ecosystem located between the freshwater Everglades and downstream estuarine embayments. Whereas fishes inhabiting seasonally-inundated areas of the SESE and the shorelines of downstream embayments have been examined, those utilizing the creeks connecting these ecotones have not. To evaluate the functional role of the creek habitat and the possible impact of future hydrologic changes on the fishes inhabiting them, 228 underwater visual surveys were performed at three locations of the SESE over a three-year period. Fish abundance data was related to structural habitat, water level, and salinity over various time periods. The SESE contains taxa from both the freshwater Everglades and downstream embayments, but does not appear to function as a nursery for most fishery taxa. Abiotic variability and fish diversity increased with distance from major freshwater sources. Though there were significant differences in the physical structure of mangrove trees among locations, few meaningful correlations between these parameters and the density of individual fish taxa were found. Small prey-base fishes (<10 cm TL) utilize the expansive ephemeral wetlands (i.e., upper mangle) during wet periods, and were concentrated into deeper creeks when these wetlands became dry. Densities of these fishes increase on the upper mangle with increased flooding (hydroperiod), and we observed greater densities of larger species in the creeks when hydroperiods exceeded 240 days. Based on these results, we recommend that water management create water releases which result in a wet period of ca. 240 days, followed by a gradual dry period lasting ca. 90 days.     

The use of artificial reefs in enhancing fish communities in Singapore

Intense development of the coastal zone in Singapore has resulted in the degradation of much of the marine ecosystem. In order to restore and enhance fish communities of denuded areas, an artificial reef consisting of a tyre reef and a concrete reef, was established in the vicinity of the southern islands of Singapore. Results from fish visual censuses after the establishment of the artificial reef indicated an increase in numbers of juveniles and adults. A total of 37 and 32 fish species were recorded over a period of 1/2 years at the concrete and tyre reefs respectively. The dominant fish families were Pomacentridae, Labridae, Chaetodontidae, Apogonidae, Gobiidae and Nemipteridae. The artificial reefs also serve as a nursery ground for some species (e.g. Neopomacentrus sp.) which are important primary consumers of algae on natural reefs. Greater numbers of target (food-important) fishes were observed at the concrete reef while the tyre reef harboured more juveniles and smallersized adults. The results indicate that the concrete modules were more effective than the tyre reef in terms of fish abundance per unit volume. Such structures can enhance the biological resources of relatively unproductive areas.     

FMiR: A Curated Resource of Mitochondrial DNA Information for Fish

Mitochondrial genome sequences have been widely used for evolutionary and phylogenetic studies. Among vertebrates, fish are an important, diverse group, and their mitogenome sequences are growing rapidly in public repositories. To facilitate mitochondrial genome analysis and to explore the valuable genetic information, we developed the Fish Mitogenome Resource (FMiR) database to provide a workbench for mitogenome annotation, species identification and microsatellite marker mining. The microsatellites are also known as simple sequence repeats (SSRs) and used as molecular markers in studies on population genetics, gene duplication and marker assisted selection. Here, easy-to-use tools have been implemented for mining SSRs and for designing primers to identify species/habitat specific markers. In addition, FMiR can analyze complete or partial mitochondrial genome sequence to identify species and to deduce relational distances among sequences across species. The database presently contains curated mitochondrial genomes from 1302 fish species belonging to 297 families and 47 orders reported from saltwater and freshwater ecosystems. In addition, the database covers information on fish species such as conservation status, ecosystem, family, distribution and occurrence downloaded from the FishBase and IUCN Red List databases. Those fish information have been used to browse mitogenome information for the species belonging to a particular category. The database is scalable in terms of content and inclusion of other analytical modules. The FMiR is running under Linux operating platform on high performance server accessible at URL http://mail.nbfgr.res.in/fmir.     

Differential expression of 2′∶3′-cyclic nucleotide 3′-phosphodiesterase in cultured central,peripheral, and extraneural cells

The relative levels of the central nervous system myelin marker enzyme 2:3-cyclic nucleotide 3-phosphodiesterase (EC 3.1.4.37, CNPase) were determined in neuroblastoma, astrocyte, oligodendrocyte and Schwann cell cultures and in freshly isolated human lymphocytes and platelets. The highest specific activities were associated with the cells that elaborate myelin membrane in the central and peripheral nervous system, oligodendrocytes and Schwann cells, respectively. Antiserum to bovine CNPase recognized both CNP1 and CNP2 in CNS myelin and human oligodendroglioma. In addition, a 53,000 dalton protein was evident on autoradiographs of immunoblotted PNS myelin and human oligodendroglioma proteins. Cultured rat oligodendrocyte, C₆ and mouse NA neuroblastoma CNPase appear to share common determinants with the corresponding normal rat CNS enzyme.     

Global Documentation of Fish Introductions: the Growing Crisis and Recommendations for Action

Fish provides 15% of the total animal protein in human diets. It is also the primary source of livelihood for 35 million people (30 M in Asia and 2.6 M in Africa). The increase in global population and demand for fish protein cannot be met by capture fisheries alone. Governments are turning towards aquaculture as the source of fish protein. However, it has also led to the introduction and establishment of non-native species in local ecosystems through their escapement from aquaculture facilities to the wild. In freshwater ecosystems with relatively high endemism, this has become a significant problem. Documenting the international movement of fish is one way of providing a general view of the magnitude of these movements and the existing and potential threat faced by ecosystems due to species invasiveness. Information, however, is limited and scattered in different journals and agency/project reports. Several agencies, both local and international, have databases that provide information on invasive species (terrestrial and aquatic, local, regional or international in scope). The critical challenge is for consolidation, common access through data sharing and development of risk assessment and management tools. This is proposed through the use of Internet technology, sharing of databases or having a gateway or portal to which all introduced and invasive fish species related databases link. The fusion of these information sources will allow access to updated and reliable information. The experience of the WorldFish Center in documenting these phenomena through developing the FishBase information system and global partnerships is presented with recommendations for harmonizing approaches. An erratum to this article is available at .     

Species diversity and abundance of freshwater fishes in irrigation ditches around rice fields

The relationships between environmental variables, distribution of freshwater fishes and their diet were investigated at 40 sites on irrigation ditches for rice fields in central Japan. Multivariate analyses showed that fish species richness and diversity in ditches was high when fishes were able to easily invade the rice fields. Natural stream beds not covered by concrete had greater total number and biomass of fishes in irrigation ditches. The connection between ditches and rice fields was of secondary importance. Canonical correlation analysis indicated that the two principal fish community variables, abundance and diversity, were respectively represented by the presence of the minnow, Gnathopogon elongatus elongatus, and the absence of the loach, Misgurnus anguillicaudatus. Most fishes in the irrigation ditches predominantly preyed upon aquatic insects such as ephemeropteran nymphs, chironomid larvae and trichopteran larvae, but aerial insects and benthic algae were also fed upon by a few species. Small fishes (<4cm SL) preyed more on chironomid and less on trichopteran larvae than large (4cm SL) fishes. The diet overlap between species was extremely high for small fishes in ditches weakly connected with rice fields. The recent changes in rice fields and irrigation ditches to increase production efficiency has led to a decrease in fish diversity. For the coexistence of rice production and fish diversity in rice areas, a new irrigation system, where fishes can easily invade rice fields and where plenty of invertebrates are available for fishes, should be developed.     

A dataset from bottom trawl survey around Taiwan

Bottom trawl fishery is one of the most important coastal fisheries in Taiwan both in production and economic values. However, its annual production started to decline due to overfishing since the 1980s. Its bycatch problem also damages the fishery resource seriously. Thus, the government banned the bottom fishery within 3 nautical miles along the shoreline in 1989. To evaluate the effectiveness of this policy, a four year survey was conducted from 2000-2003, in the waters around Taiwan and Penghu (Pescadore) Islands, one region each year respectively. All fish specimens collected from trawling were brought back to lab for identification, individual number count and body weight measurement. These raw data have been integrated and established in Taiwan Fish Database (http://fishdb.sinica.edu.tw). They have also been published through TaiBIF (http://taibif.tw), FishBase and GBIF (website see below). This dataset contains 631 fish species and 3,529 records, making it the most complete demersal fish fauna and their temporal and spatial distributional data on the soft marine habitat in Taiwan.     

Fish faunal ‘breaks’ and stream order in the eastern and central United States

Synopsis The distribution of fishes within 23 streams in the eastern and central United States was analyzed for evidence of distinct longitudinal faunal breaks, and to compare location of the breaks to stream order and longitudinal position of stations within watersheds. On the basis of presence-absence data for fish species, distinct faunal breaks were found in only 8 of the 23 streams. Qualitative faunal breaks were not significantly more common in any particular reach of streams, and the breaks did not correspond to changes in stream order. In 11 of 14 streams for which data on fish abundance were available, quantitative faunal breaks were found, but the locations of these breaks were unrelated to stream order or longitudinal position of stations in streams. Earlier studies have postulated that stream orders may represent distinct biological units for fishes. In contrast, this analysis shows that local fish faunas differ as much within as between adjacent stream orders, and suggests that stream order alone is not a pervasive organizer of lotic fish communities.     

Appetitive conditioning technique reveals behavioural limits to passage performance in fishes

Numerous environmental features have the potential to act as barriers to fishes in the field. Passage of these barriers depends on two main properties: willingness (behavioural) and physiological capacity. The physiological swimming capacity of fishes has been well studied. However, because most barrier research has focused on the population level effects of man – made barriers, little attention has been given to the behavioural aspects of fish passage. We used appetitive conditioning to create a simple laboratory based protocol to estimate behavioural limits to fish passage. We tested our protocol using barrier height (or passage space) as a model. Our protocol successfully identified behavioural limits in two species, juvenile rainbow trout, Oncorhynchus mykiss, and fathead minnows, Pimephales promelas. Our most interesting observation was that even a partial, submerged barrier had the potential to block fish movements. Our results suggest a potential use for conditioning techniques in assessing factors that constitute behaviour barriers to fishes. This information may help us to better predict fish movements in the field and may help us to design barriers that are more efficient at passing fishes.     

Juvenile Snooks (Centropomidae) as Mimics of Mojarras (Gerreidae), with a Review of Aggressive Mimicry in Fishes

Aggressive mimicry has been proposed for several unrelated fish species both in freshwater and marine environments. I describe herein a few additional examples, including the first ones from brackish water. In one well documented case, juvenile snooks, Centropomus mexicanus (Centropomidae) join bottom-foraging groups of the superficially similar mojarras, Eucinostomus melanopterus (Gerreidae) and prey on small fishes and crustaceans under such disguise. Two other snook species and two species of groupers (Serranidae), are here suggested as additional instances of aggressive mimicry. Furthermore, I review published examples of aggressive mimicry in fishes and indicate trends in the relationships between the mimics, their feeding tactics, and their putative models. Three large families, Serranidae, Cichlidae, and Blenniidae display most of the examples of aggressive mimicry, serranids being largely represented by the genus Hypoplectrus and blenniids by the tribe Nemophini only. Three major trends are here indicated for aggressive mimics: (1) fish species that feed on prey smaller than themselves tend to mimic and join fish species harmless to their prospective prey; (2) fish species that feed on prey larger than themselves tend to mimic mostly beneficial fish species (cleaners) or, less frequently, join species harmless to their prospective prey; (3) fish species that feed on prey about their own size tend to mimic their prospective prey species, the perfect wolf in a sheep's clothes disguise type. The latter deceit is recorded mostly for scale and fin-feeding freshwater fishes.     

A concept to protect fisheries recruits by seasonal closure during spawning periods for commercial fishes off Taiwan and the East China Sea

The 72 most important commercial fish species as well as nine unidentified fish groups representing hundreds of fish species as the major and minor target species caught in waters off Taiwan and the East China Sea were selected from the ‘Fisheries Yearbook Taiwan Area.’ All available published and grey literature as well as the Fish Database of Taiwan and Fishbase websites were thoroughly reviewed for a total of 108 fish species, including 51 out of 72 major and 57 minor target fish species, on their reproductive periods in waters off Taiwan and the East China Sea. The spawning periods from these commercial fish species were then summarized. An imperative adjustment was recommended for the established fishing season closure, i.e. for an earlier start, from April to June, in the southern East China Sea. This suggested correction corresponded with the spawning period of most fishes so as to maximize the protection of spawning cohorts for at least 68 major and minor target fish species, which would account for over 53% of the total fish yield in Taiwanese offshore fisheries.