Mitogenomic analysis for coelacanths (Latimeria chalumnae) caught in Tanzania

In recent years, a large number of individuals of the species Latimeria chalumnae, one of the living fossil coelacanths, have been landed off the coast of Tanzania. Although L. chalumnae specimens have also been landed at other localities in the western Indian Ocean, so far, viable populations of this species have been identified only at two localities, Comoros and South Africa. Therefore, the recent active catch off Tanzania suggests a new habitat for L. chalumnae. To examine the genetic background of the Tanzanian fish, we analyzed complete mtDNA sequences of two Tanzanian individuals (Kigombe-9 and Songo Mnara-1) collected from the north and south coasts of Tanzania. Using the recently reported criteria for six haplotypes established in a population genetic study for coelacanths living in the western Indian Ocean [Schartl, M., Hornung, U., Hissman, K., Schauer, J., Fricke, H., 2005. Relatedness among east African coelacanths. Nature 435, 901.], we characterized Songo Mnara-1 as haplotype 1 and Kigombe-9 as haplotype 5. We suggest that the Songo Mnara specimen is a member of the Comoran group, but was swept away by the South Equatorial current. The individual from Kigombe may be a member of an undiscovered population that exists near the boundary between Tanzania and Kenya. Further analysis using more than 19 individuals recently captured off the north coast of Tanzania will reveal whether a new population exists there. Our sequence data suggest additional variable sites in the mtDNA sequence that may define the population structure of coelacanths in the western Indian Ocean and also raise the possibility that the previously published Comoran coelacanth mtDNA sequence contains several critical errors including base changes and indels.     

Observations on locomotion and feeding of released coelacanths,Latimeria chalumnae

Synopsis Two line-caught coelacanths, Latimeria chalumnae, were released for observation of their free-swimming movements in the open sea at a depth of about 50 m. Observations were made of their movement and use of the fins, interaction with humans (scuba diver), and colouration (white patches on dark background) as a possible means of camouflage. A new nomenclature is proposed for the caudal fin region and finnage.     

Cadmium phytoextraction potential of poplar clones (Populus spp.)

Biomass production, leaf number and area, photosynthetic and dark respiration rates, leaf concentration of photosynthetic pigments, nitrate reductase activity, as well as cadmium concentrations in leaves, stem, and roots were measured in poplar clones PE 4/68, B-229, 665, and 45/51. Plants were grown hydroponically under controlled conditions and treated with two different cadmium (Cd) concentrations (10(-5) and 10(-7) M) in the same background solution (Hoagland's solution). The presence of Cd did not cause serious disturbance of growth and physiological parameters in the studied poplar clones. Cd concentrations in plant tissues reflected external concentrations. In treated plants, root contents increased from 38.57 to 511.51 ppm, leaf contents from 0.91 to 7.50, while stem contents ranged from 1.37 to 9.50 ppm.     

桫椤的潜在适生区及其变化

桫椤是极为珍贵的孑遗木本蕨类植物.本研究利用Maxent生态位模型研究其全球潜在适生区及其变化,并运用受试者工作特征曲线(ROC)验证了精度,以为其资源的保护、搜寻和引种栽培提供参考.结果表明:桫椤的潜在适生区主要位于亚洲,少量分布于北美洲、中美洲和香草四岛、新西兰、新喀里多尼亚、斐济.当前气候条件下,桫椤的全球适生区...     

Predicting walnut (Juglans spp.) crop yield using meteorological and airborne pollen data

Crop yield determines economy by influencing prices on the trade market, and so accurate forecasts of the yield are important for planning various aspects of agricultural production. The main aim of this study is to construct a model for predicting walnut yield in an important walnut production area (the region of Novi Sad in Northern Serbia). Relationships between the amount of walnuts produced annually (2000–2011) and abiotic (e.g. meteorological) and biotic (e.g. airborne pollen data) factors were examined using Pearson correlation analysis. Walnut yield data were then entered into linear regression models with variables that had the highest correlations. The models were constructed using 10 years of data, and tested using 2 years of data not included in constructing the model. This paper has shown that walnut yield is greatly dependent on weather conditions, particularly during fertilisation and seed growth, but the amount of available airborne pollen also plays an important role. The introduction of the seasonal pollen index, as a proxy for the amount of pollen available for fertilisation, improved the performance of models predicting walnut yield.     

A rapid method for extraction of cotton (Gossypium spp.) genomic DNA suitable for RFLP or PCR analysis

Extraction of high-quality genomic DNA fromGossypium (cotton) species is difficult due to high levels of polysaccharide, oxidizable quinones, and other interfering substances. We describe a procedure that consistently permits isolation of cotton genomic DNA of satisfactory size and quality for RFLP and PCR analysis, as well as for most routine cloning applications. Several antioxidants, phenol-binding reagents, and phenol oxidase inhibitors are used throughout the procedure, and most polysaccharides are eliminated early in the procedure by isolation of nuclei.     

Species-specific interactions between small planktonic ciliates (Urotricha spp.) and rotifers (Keratella spp.)

We investigated the potential impact of four isolates of smallciliates of the genus Urotricha on the common rotifer speciesKeratella cochlearis and Keratella quadrata in laboratory batchculture experiments. Two small Cryptomonas species served asfood for the ciliates and the rotifers in the experiments. Populationgrowth rates of the rotifers were measured when they grew aloneand when they were paired with one of their potential ciliatecompetitors. Growth rates of K. cochlearis were enhanced andtheir mortality rates reduced in the presence of Urotricha furcata,most likely because the rotifers preyed upon the ciliates. Thelarger rotifer species, K. quadrata, also feeds upon small Urotricha,yet their population growth rates were negatively affected byUrotricha. This was because the mortality rate of K. quadrataincreased in the presence of all three isolates of U. furcataand the one isolate of Urotricha farcta. It needs to be investigatedwhether this effect is chemically mediated and ecologicallyrelevant.     

Aquatic environments: A potential source of antimicrobial-resistant Vibrio spp.

Vibrio spp. are associated with water and seafood-related outbreaks worldwide. They are naturally present in aquatic environments such as seawater, brackish water and freshwater environments. These aquatic environments serve as the main reservoirs of antimicrobial-resistant genes and promote the transfer of antimicrobial-resistant bacterial species to aquatic animals and humans through the aquatic food chain. Vibrio spp. are known as etiological agents of cholera and non-cholera Vibrio infections in humans and animals. Antimicrobial-resistant Vibrio species have become a huge threat in regard to treating Vibrio infections in aquaculture and public health. Most of the Vibrio spp. possess resistance towards the commonly used antimicrobials, including β-lactams, aminoglycosides, tetracyclines, sulphonamides, quinolones and macrolides. The aim of this review is to summarize the antimicrobial resistance properties of Vibrio spp. isolated from aquatic environments to provide awareness about potential health risks related to Vibrio infections in aquaculture and public health.     

Genetic evidence for seasonal consumption of monkfish (Lophius spp.) and salmonids (Salmo spp.) by gray seals

Recoveries of gray seal (Halichoerus grypus) populations across their eastern Atlantic distribution have led to a steady increase in seal-fishery interactions. Fishers have estimated depredation of salmonids (Salmo spp.) and monkfish (Lophius spp.) as high as 40% and 59% respectively in Ireland. However, empirical evidence for the consumption of these species has been extremely limited due to diagnostic hard part remains not being found in scats or stomach samples. We applied species-specific primers and tested for the presence of monkfish and salmonids in gray seal diet genetically using quantitative polymerase chain reaction (qPCR) on scats. Monkfish occurred in 29.7% of sampled scats, while salmonids occurred in 12.7%. Seasonal and regional variability in occurrence were noted for both species, likely related to the migratory behavior of the prey species and proximity of seal haul-outs to aquaculture sites. Traditional hard part analysis of scats, including scats that tested positive for monkfish and salmonid DNA, failed to find any evidence of either species. This study provides important empirical evidence for the consumption of these species in Ireland that can inform management.     

Predicting distributions,habitat preferences and associated conservation implications for a genus of rare fishes,seahorses (Hippocampus spp.)

Aim

To identify useful sources of species data and appropriate habitat variables for species distribution modelling on rare species, with seahorses as an example, deriving ecological knowledge and spatially explicit maps to advance global seahorse conservation.

Location

The shallow seas.

Methods

We applied a typical species distribution model (SDM), maximum entropy, to examine the utility of (1) two versions of habitat variables (habitat occurrences vs. proximity to habitats) and (2) three sources of species data: quality research‐grade (RG) data, quality‐unknown citizen science (CS) and museum‐collection (MC) data. We used the best combinations of species data and habitat variables to predict distributions and estimate species–habitat relations and threatened status for seahorse species.

Results

We demonstrated that using “proximity to habitats” and integrating all species datasets (RG, CS and MC) derived models with the highest accuracies among all dataset variations. Based on this finding, we derived reliable models for 33 species. Our models suggested that only 0.4% of potential seahorse range was suitable to more than three species together; seahorse biogeographic epicentres were mainly in the Philippines; and proximity to sponges was an important habitat variable. We found that 12 “Data Deficient” species might be threatened based on our predictions according to IUCN criteria.

Main conclusions

We highlight that using proper habitat variables (e.g., proximity to habitats) is critical to determine distributions and key habitats for low‐mobility animals; collating and integrating quality‐unknown occurrences (e.g., CS and MC) with quality research data are meaningful for building SDMs for rare species. We encourage the application of SDMs to estimate area of occupancy for rare organisms to facilitate their conservation status assessment.

     

Genetic divergence and ecological specialisation of seed weevils (Exapion spp.) on gorses (Ulex spp.)

Abstract.  1. Reproductive isolation of sympatric populations may result from divergent selection of populations in different environments, and lead to ecological specialisation. In Brittany (France), the gorse Ulex europaeus (Fabaceae, Genisteae), may be encountered in sympatry with one of the two other gorse species present: U. gallii and U. minor . A recent study based on morphological identification of seed predators of gorse has shown that two weevil species (Curculionoidea, Apionidae) infest gorse pods at different seasons and have different host ranges: Exapion ulicis infests U. europaeus in spring, whereas E. lemovicinum infests U. gallii and U. minor in autumn. Weevil populations may thus have diverged in sympatry.
2. As morphological identification of weevils is often difficult and some of the characters used may exhibit individual or environmental variation, mitochondrial and nuclear sequences of weevils collected within pods of the three gorse species in 10 populations of Brittany were used to reconstruct their phylogeny.
3. The results reveal that species differentiation based on morphological characters is confirmed by the two molecular data sets, showing that E. ulicis and E. lemovicinum are distinct species, and suggesting the absence of host races. Finally, E. ulicis was able to use U. gallii and U. minor pods in spring in some years in some populations, which appeared to depend on the availability of pods present during its reproductive period.
4. Divergence between E. ulicis and E. lemovicinum may have resulted from temporal isolation of reproductive periods of weevil populations followed by specialisation of insects to host phenology.     

Social parasitism in fire ants (Solenopsis spp.): a potential mechanism for interspecies transfer of Wolbachia

One possible mechanism for interspecific transfer of Wolbachia is through the intimate contact between parasites and their hosts. We surveyed 10 species of fly parasitoids (Pseudacteon spp.) and one inquiline social parasite, Solenopsis daguerrei, for the presence and sequence identity (wsp gene) of Wolbachia. Two Wolbachia variants infecting S. daguerrei were identical to known variants infecting the two common ant host species, Solenopsis invicta and Solenopsis richteri, suggesting possible transfers of Wolbachia between this parasite and their hosts have occurred. Our data also revealed an unexpectedly high diversity of Wolbachia variants within S. daguerrei: up to eight variants were found within each individual, which, to our knowledge, is the highest reported number of Wolbachia variants infecting a single individual of any host species.     

Spirostomum spp. (Ciliophora, Protista), a suitable system for endocytobiosis research

Summary. Among ciliate genera, only Paramecium and Euplotes species have been studied extensively as host organisms of bacterial endocytobionts. In this article, we show that members of the genus Spirostomum may also serve as a suitable system for endocytobiosis research. Two strains of Spirostomum minus (Heterotrichea, Ciliophora) collected in Germany and Italy, respectively, were found to harbor different types of bacterial infections. Bacteria of various sizes and shapes were observed in the cytoplasm or in the nuclei of the ciliates. The bacteria in the cytoplasm were either surrounded by a peribacterial membrane or lay naked. One of the bacterial species was found in the vicinity of the contractile fibrillar system (myonemes) of the ciliates. In rare cases, another type of bacteria was observed associated with mitochondria. The macronuclei of both the Italian and the German strains were crowded with endocytobionts. The endonuclear bacteria in the two S. minus strains differed with respect to their cytoplasmic structures but they were of similar size and both were rod shaped. According to the results of in situ hybridization, the endonuclear bacteria of the Italian strain belong to the subgroup of alphaproteobacteria, whereas the bacteria associated with the fibrillar system appeared to be gram-positive bacteria with high G+C content. While both the German and the Italian strains were found to permanently maintain their endocytobionts, they were at least partly colonized by different bacteria. This is taken as an indication that geographically separated populations of ciliates may be stably infected by different endocytobionts, possibly due to different ecological conditions. For S. minus and S. ambiguum a total of 7 different bacterial endocytobionts have now been recorded. We recommend the members of the genus Spirostomum as a suitable system for endocytobiosis research. Correspondence and reprints (present address): Laboratorio di Protistologia, Dipartimento di Etologia, Ecologia ed Evoluzione, Università di Pisa, Via A. Volta 4, 56126 Pisa, Italy.     

Micropropagation of meadowfoam (Limnanthes spp.)

Summary A rapid micropropagation system was developed for meadowfoam (Limnanthes spp. Brown) using four genotypes of three species. Murashige and Skoog (MS) medium supplemented with N⁶ benzyladenine (BA) and indole-3-acetic acid (IAA) at 0, 0.1, 0.5, 1.0 and 2.0 mg/l was tested for multiplication, shoot elongation and rooting. Expiants were taken from pot-grown plants. The most useful level for shoot growth and multiplication of both floral induced and non-induced plants was 0.5 mg/l BA. IAA failed to affect shoot growth or multiplication. Expiants from non-induced plants multiplied at moderate to high rates on 0.5 mg/l BA, while those from induced plants multiplied slowly and tended to elongate and flower. Non-induced plants on 2 mg/l BA produced large numbers of tiny shoots; induced plants did not respond. Shoots of all genotypes rooted on MS medium without hormones and all plants grew normally after transplanting to soil. This system provides a new tool for the development of meadowfoam as a crop plant.Abbreviations (BA) N ⁶ -benzyladenine - (IAA) indole-3-acetic acid - (MS) Murashige and Skoog medium, 1962     

Micropropagation of sugarcane (Saccharum spp.)

A method for callus induction, adventitious bud regeneration, shoot multiplication and rooting of in vitro formed shoots of Helianthus annuus L. var. Argentario is described. Hypocotyl and cotyledon explants formed callus on medium containing 2 mgl^–1 naphthalene acetic acid and 0.5 mgl^–1 benzyladenine. Adventitious buds were formed on hypocotyl segments on medium containing 0.5–2 mgl^–1 benzyladenine. The optimal level of sucrose concentration for shoot regeneration from hypocotyls was 1.5%. Multiplication from shoot apices was promoted by kinetin (2 mgl^–1) plus gibberellic acid (5 mgl^–1), benzyladenine (2 mgl^–1) plus gibberellic acid (10 mgl^–1) or at lower frequency by benzyladenine (1 mgl^–1). A general feature of the plantlets formed in vitro was the precocious flowering.