Molecular ecology meets remote sensing: environmental drivers to population structure of humpback dolphins in the Western Indian Ocean

Genetic analyses of population structure can be placed in explicit environmental contexts if appropriate environmental data are available. Here, we use high-coverage and high-resolution oceanographic and genetic sequence data to assess population structure patterns and their potential environmental influences for humpback dolphins in the Western Indian Ocean. We analyzed mitochondrial DNA data from 94 dolphins from the coasts of South Africa, Mozambique, Tanzania and Oman, employing frequency-based and maximum-likelihood algorithms to assess population structure and migration patterns. The genetic data were combined with 13 years of remote sensing oceanographic data of variables known to influence cetacean dispersal and population structure. Our analyses show strong and highly significant genetic structure between all putative populations, except for those in South Africa and Mozambique. Interestingly, the oceanographic data display marked environmental heterogeneity between all sampling areas and a degree of overlap between South Africa and Mozambique. Our combined analyses therefore suggest the occurrence of genetically isolated populations of humpback dolphins in areas that are environmentally distinct. This study highlights the utility of molecular tools in combination with high-resolution and high-coverage environmental data to address questions not only pertaining to genetic population structure, but also to relevant ecological processes in marine species.     

Aboveground net production and dry matter allocation ofPinus pumila forests in the Kiso mountain range,central Japan

Aboveground net production rates of the subalpine stone pine (Pinus pumila) forests in central Japan were estimated by the summation method; net production was defined as the sum of annual biomass increment and annual loss due to death. In the two pine stands of different scrub heights, P1 (200 cm) and P2 (140 cm), aboveground biomass reached 177 and 126 ton ha⁻¹, respectively. Leaf biomass was about 14 ton ha⁻¹ in each stand. The estimates of aboveground net production during the 2 year period (1987–1989) averaged 4.1 and 3.7 ton ha⁻¹ y⁻¹ in P1 and P2, respectively, which were at the lowest among the pine forests in the world. Two indices of efficiency of energy fixation, that is, the ratio of net production to the total radiation during a growing season and the ratio of net production to total radiation per unit of leaf weight, were evaluated. Both efficiency indices for the twoP. pumila stands fell in the range obtained for other Japanese evergreen conifer forests. This suggested that the low annual net production of the stone pine stands were mainly due to a limitation in the length of the growing season. The pine forests were also characterized by a small allocation (about 17%) of aboveground net production into biomass increment, in comparison with other evergreen conifer forest types. Annual net carbon gain in theP. pumila forests was suggested to be largely invested in leaf production at the expense of the growth of woody parts.     

Reproduction, diet and population structure of the mountain mullet, Agonostomus monticola, in Jamaica, West Indies

Reproduction, feeding and population structure were investigated in the mountain mullet, Agonostomus monticola, in eastern Jamaica between 1982 and 1986. Female fishes just outnumbered males 1.2 : 1. Minimum size at maturity for females was 123 mm fork length (FL) and 96 mm FL for males. Mean size at maturity for females was 165.8 mm FL (S.D.=1.61) and for males was 148.4 mm FL (S.D.=2.97). Fecundity was 340 000 eggs for a 25 g ovary. Fecundity (F) was related to size by the equation F=153.8 FL^1.36. Mean lengths of males and females captured by all methods were 129.4 mm (S.D.=5.56) and 160.4 mm FL (S.D.=0.70), respectively. A. monticola was found to be chiefly an insectivorous feeder. The major food items found in stomach contents in ranked sequence were insects, freshwater prawns, plant detritus and algae.     

Global population structure of the spiny dogfish Squalus acanthias,a temperate shark with an antitropical distribution

The spiny dogfish (Squalus acanthias) is a temperate, coastal squaloid shark with an antitropical distribution in the Atlantic and Pacific oceans. The global population structure of this species is poorly understood, although individuals are known to undergo extensive migrations within coastal waters and across ocean basins. In this study, an analysis of the global population structure of the spiny dogfish was conducted using eight polymorphic nuclear microsatellite markers and a 566‐bp fragment of the mitochondrial ND2 gene region. A low level of genetic divergence was found among collections from the Atlantic and South Pacific basins, whereas a high level of genetic divergence was found among Pacific Ocean collections. Two genetically distinct groups were recovered by both marker classes: one exclusive to North Pacific collections, and one including collections from the South Pacific and Atlantic locations. The strong genetic break across the equatorial Pacific coincides with major regional differences in the life‐history characters of spiny dogfish, suggesting that spiny dogfish in areas on either side of the Pacific equator have been evolving independently for a considerable time. Phylogeographic analyses indicate that spiny dogfish populations had a Pacific origin, and that the North Atlantic was colonized as a result of a recent range expansion from the South American coast. Finally, the available data strongly argue for the taxonomic separation of the North Pacific spiny dogfish from S. acanthias and a re‐evaluation of the specific status of S. acanthias is warranted.     

Production characteristics of the population of the red algaAhnfeltia tobuchiensis in Baklan Bight (Peter the Great Bay, Sea of Japan)

Spatial distribution and production characteristics of the population of the unattached red algaAhnfeltia tobuchiensis (Kanno and Matsubara) Mak were studied in Baklan Bight (Sea of Japan) in September 1990 and June 1991. The following environmental factors were determined: the level of photosynthetically active radiation (PAR) penetrating the water column; the water temperature; and the content of oxygen, nitrogen, phosphorus, and dissolved organic substance. the main factor limiting the net primary production (NPP) of theA. tobuchiensis population in Baklan Bight appears to be PAR intensity at the surface of the stratum. In June and September, respectively it constituted about 10% and 0.2% of the PAR on the sea surface. By means of regression analysis, the following equations were obtained to describe the relationship between NPP at the surface of the stratum and the environmental factors studied, PAR intensity being the principal variable: NPP=0.02+0.81 PAR (in June) and NPP=0.02+0.23PAR (in September). In June and September, the NPP of theA. tobuchiensis stratum amounted to 17.2 and 1.3 g/(m² day), and the biomass to 21 and 31 thousand tons, respectively. During the eight months, its distribution changed considerably. In June and September, the daily biomass growth equaled 140.7 and 8.5 t, respectively. A 10-cm-thick layer displayed the highest production characteristics.     

Correlations in the population structure of music,genes and language

We present, to our knowledge, the first quantitative evidence that music and genes may have coevolved by demonstrating significant correlations between traditional group-level folk songs and mitochondrial DNA variation among nine indigenous populations of Taiwan. These correlations were of comparable magnitude to those between language and genes for the same populations, although music and language were not significantly correlated with one another. An examination of population structure for genetics showed stronger parallels to music than to language. Overall, the results suggest that music might have a sufficient time-depth to retrace ancient population movements and, additionally, that it might be capturing different aspects of population history than language. Music may therefore have the potential to serve as a novel marker of human migrations to complement genes, language and other markers.     

Genetic diversity and population structure in two species of sea cucumber: differing patterns according to mode of development

The population structure of two species of sea cucumber was examined based on mitochondrial DNA sequence analysis. Cucumaria miniata , a species with pelagic nonfeeding larvae lasting less than 2 weeks, and C. pseudocurata , a brooding species lacking a pelagic phase, both occur over similar wide ranges of the northeastern Pacific between Alaska and California. No significant genetic structuring was observed among C. miniata samples with 95% of the observed nucleotide variance attributable to that within population samples. Conversely, only 3.4% of the observed variance was attributed to that within C. pseudocurata population samples, with sampling sites typically greater than 100 km apart. At a finer scale, two C. pseudocurata population samples taken 5 km apart were not statistically different. A significant genetic disjunction was observed among populations of the brooding species, but not in species with pelagic larvae, north of Vancouver Island, Canada, corresponding to the splitting of the California and Alaska currents. Given the observed high levels of genetic diversity in northern samples, this genetic break indicates survival in northern, as well as southern, Pleistocene refugia. These results clearly demonstrate the effects that changes in life-history patterns can have on dispersal, population structure, and the potential for speciation events.     

Effects of micro-environmental factors on photosynthetic CO2 uptake and carbon fixation metabolism in a spring ephemeral, Erythronium japonicum, growing in native and open habitats

Microenvironmental factors and physiological parameters (such as water potential, activity of ribulose 1,5-bisphosphate carboxylase (RuBPcase), levels of ribulose 1,5-bisphosphate (RuBP), 3-phosphoglyceric acid (PGA) and sucrose in leaves) affecting photosynthetic processes of the typical vernal species Erythronium japonicum Decne. were examined on the floor of a deciduous broad-leaved Quercus mongolica forest (Q.m. stand) and on bare land left undisturbed for 7 years after forest clearing (bare stand). Daytime solar radiation and the air and leaf temperatures at the bare stand were significantly higher than those at the Q.m. stand. The relative air humidity was very low and did not differ much between the stands, whereas the leaf–air vapor pressure difference (VPD) at the bare stand was twice as high as that at the Q.m. stand. The water potential in leaves at the bare stand was lower than two times that at the Q.m. stand. Therefore, the aboveground parts of the plants at the bare stand were subjected to much more severe heat stress than those at the Q.m. stand. When these environmental factors observed at the bare stand were reproduced in an assimilation chamber, the rate of photosynthetic CO₂ uptake, stomatal conductance and water potential in leaves were significantly low in comparison with those when the factors at the Q.m. stand were simulated. The internal CO₂ partial pressure in leaves at the bare stand was considerably lower than that at the Q.m. stand. Consequently, the decrease in the photosynthetic rate of the plants at the bare stand was caused mainly by a decrease in stomatal conductance through a lowering of water potential due to subjection of the aboveground parts to much more severe heat stress than that at the Q.m. stand. The possibility that an inhibition of the photosynthetic carbon fixation metabolism induced by the decrease in water potential contributes to the reduction in photosynthetic CO₂ uptake in the plants at the bare stand is also discussed in light of physiological characteristics such as the activity of RuBPcase and levels of PGA, RuBP and sucrose in the leaves.     

Dynamics and dry matter production of belowground woody organs ofPinus pumila trees growing on the Kiso mountain range in central Japan

Size, biomass and spatial distribution patterns of belowground woody organs ofPinus pumila trees were investigated. Dry weight estimates of five sample trees were between 14 and 36 kg tree⁻¹. Belowground stems accounted for about 32% of the total tree weight. However, the belowground stems had extensive barkless portions, indicating that the decomposition of dead belowground stems was an important source of organic matter in the soil. The, basal diameters of adventitious roots tended to become smaller as their orginating positions neared the ground surface. It was suggested thatP. pumila trees regenerate by successively producing adventitious roots from their buried stems and moving down the slope.     

海州湾人工鱼礁海域春、夏季浮游植物群落结构及其与环境因子的关系

根据2009年5月和8月海州湾人工鱼礁建设海域水化学和浮游生物调查资料,对浮游植物群落结构进行了研究,并运用灰色关联分析方法对浮游植物丰度与环境因子的关系进行相关性分析。结果表明,海州湾浮游植物群落组成以硅藻为主;浮游植物丰度的时间分布以夏季平均丰度为3.06×106 cells／m^3,高于春季的3.12×104 cells／m^3;空间分布表现为鱼礁区高于对照区,以夏季鱼礁区站点R5的7.97×106cells／m^3最高,其次为夏季R3的7.53×106cells／m^3;对群落多样性的研究表明,春、夏两季鱼礁区香农一威纳指数（H＇）均值均高于对照区;春季影响浮游植物丰度的主要环境因子依次为：可溶性无机氮（DIP）、BOD5和悬浮物（SS）,而活性硅酸盐（SiO3-Si）、活性磷酸盐（PO4-P）和BOD5对夏季浮游植物丰度影响较大。     

Genetic population structure, fitness variation and the importance of population history in remnant populations of the endangered plant Silene chlorantha (Willd.) Ehrh. (Caryophyllaceae)

Habitat fragmentation can lead to a decline of genetic diversity, a potential risk for the survival of natural populations. Fragmented populations can become highly differentiated due to reduced gene flow and genetic drift. A decline in number of individuals can result in lower reproductive fitness due to inbreeding effects. We investigated genetic variation within and between 11 populations of the rare and endangered plant Silene chlorantha in northeastern Germany to support conservation strategies. Genetic diversity was evaluated using AFLP techniques and the results were correlated to fitness traits. Fitness evaluation in nature and in a common garden approach was conducted. Our analysis revealed population differentiation was high and within population genetic diversity was intermediate. A clear population structure was supported by a Bayesian approach, AMOVA and neighbour-joining analysis. No correlation between genetic and geographic distance was found. Our results indicate that patterns of population differentiation were mainly caused by temporal and/or spatial isolation and genetic drift. The fitness evaluation revealed that pollinator limitation and habitat quality seem, at present, to be more important to reproductive fitness than genetic diversity by itself. Populations of S. chlorantha with low genetic diversity have the potential to increase in individual number if habitat conditions improve. This was detected in a single large population in the investigation area, which was formerly affected by bottleneck effects.     

Population size and structure of three mussel species (Bivalvia: Unionidae) in a northeastern German river with special regard to influences of environmental factors

Unionid mussels are of great ecological importance in running and standing waters, however their populations declined continually during the 20th century. In order to collect more data on the situation of these mussels in running waters, the populations of Anodonta anatina, Anodonta cygnea, and Unio tumidus (Unionidae) were investigated in the northeastern German river Ryck from 1996 to 1998. At three sampling stations along the river, the mussel stocks as well as sediment and water properties were analyzed. In this river abundances of up to 138.7 indiv./m² were detected. The average population densities varied from 10.9 to 34.9 indiv./m². More critically however, the age structures showed significant signs of irregular reproductive success and overaging. Consequently, the mussel stocks are going to decline, and furthermore, U.tumidus should be listed as an endangered species in the Ryck river. Negative influences on bivalves can be expected from sporadically occurring low oxygen and high ion concentrations in the water. But after all, the conditions within the sediments seem to be decisive for the survival of juvenile mussels and thus for the age structure of the populations.     

Mitochondrial DNA variation and population genetic structure of the white-clawed crayfish, Austropotamobius pallipes pallipes

Here we report a high level of mtDNA variationfrom RFLP analysis within A. p. pallipes from 21 French and 4British populations. Seventeen haplotypes were recorded among 269individuals. Nucleotide sequence divergence (p) among mtDNAhaplotypes ranged from 0.0019 to 0.0425. Nucleotide diversity ()ranged from 0.01 to 0.006 (mean = 0.0031) and from 0 to 0.001(mean = 0.00037) for populations located in southern and northernFrance, respectively. Graphical representation from principalcoordinate analysis based on Nei's genetic distance values amongpopulations showed two groups, cluster A, including the 16populations sampled in the north-western and north-easternFrance, England and Wales and cluster B containing 9 populationssampled in the central and southern of France. No geneticdifferences were noted among the most northern French and Englishpopulations whereas marked interpopulation genetic diversity wasobserved in southern populations. Such genetic heterogeneityamong populations of A. p. pallipes appears to be related tohabitat fragmentation and subsequent recolonizations fromrefugial areas during the Pleistocene. Implications for theconservation of A. p. pallipes are discussed.     

Genomic diversity,population structure,and migration following rapid range expansion in the Balsam Poplar,Populus balsamifera

Rapid range expansions can cause pervasive changes in the genetic diversity and structure of populations. The postglacial history of the Balsam Poplar, Populus balsamifera, involved the colonization of most of northern North America, an area largely covered by continental ice sheets during the last glacial maximum. To characterize how this expansion shaped genomic diversity within and among populations, we developed 412 SNP markers that we assayed for a range‐wide sample of 474 individuals sampled from 34 populations. We complemented the SNP data set with DNA sequence data from 11 nuclear loci from 94 individuals, and used coalescent analyses to estimate historical population size, demographic growth, and patterns of migration. Bayesian clustering identified three geographically separated demes found in the Northern, Central, and Eastern portions of the species’ range. These demes varied significantly in nucleotide diversity, the abundance of private polymorphisms, and population substructure. Most measures supported the Central deme as descended from the primary refuge of diversity. Both SNPs and sequence data suggested recent population growth, and coalescent analyses of historical migration suggested a massive expansion from the Centre to the North and East. Collectively, these data demonstrate the strong influence that range expansions exert on genomic diversity, both within local populations and across the range. Our results suggest that an in‐depth knowledge of nucleotide diversity following expansion requires sampling within multiple populations, and highlight the utility of combining insights from different data types in population genomic studies.     

Population dynamics of a phytophagous lady-beetle,Epilachna vigintioctopunctata (Fabricius), living in spatio-temporally heterogeneous habitats. III. Effects of habitat structure on population dynamics

Temporal changes in the population size of a phytophagous lady-beetle were analyzed to identify mechanisms affecting lady-beetle population dynamics at different spatial scales. The study area (15 ha) included 18 habitat patches. The major host plants were potato for first generation larvae and eggplant for second generation larvae. The habitat patches were classified into three groups according to the major host plants in each patch: P-E patches (both host plants available), P patches (potato only), and E patches (eggplant only). The winter disappearance of adults in the whole study area, and larval mortality in E patches were apparently the most important factors disturbing the overall population density. Density-dependent movement of females appeared to have the greatest stabilizing effect on the yearly fluctuation of population density. Rate of increase of female adults from the first to the second generation,R, was generally higher on eggplants in E patches than in P-E patches because the adult density of the first generation was much higher in P-E patches. The yearly fluctuation of adult density in each generation tended to be less in patches with all habitat components necessary for the full life cycle (P-E patches). However, such patches were not favorable for first generation females, as indicated by the lower rate of increase from the first to the second generation. The density and stability of lady-beetle populations is discussed in relation to habitat structure.     

Effects of population density, sex morph, and tree size on reproduction in a heterodichogamous maple, Acer mono, in a temperate forest of Japan

The effects of local population density, sex morph [protogynous (PG) or protandrous (PA)], and individual tree size on the demographic processes of seed production were investigated in a heterodichogamous maple, Acer mono Maxim. var. Marmoratum (Nichols.) Hara f. dissectum, in a temperate forest of Japan. As the distance from conspecific reproductive adults increased, the percentage of immature seed fall and empty seeds increased significantly, indicating higher pollination success along with local population density. Although the difference was not distinct, pollination success was affected by the local population density of the reciprocal sex morph rather than that of both sex morphs. The trees at higher local population density sites suffered higher seed mortality due to predation and decay, and tended to produce smaller seeds. Thus, the impacts of local population density operated both positively and negatively on reproduction. As a factor of individual traits, tree size scarcely affected any demographic processes. On the other hand, sex morph did affect pollination success. Trees of PG type had lower immature seed fall than those of PA type, suggesting that the former has higher efficiency of pollen acceptance than the latter. The results on seed demography presented here partly support previous suggestions that heterodichogamous plants exhibit reciprocal cross-pollination and gender specialization as reproductive traits.     

Distribution, biomass and primary production of an Ahnfeltia tobuchiensis (Ahnfeltiales, Rhodophyta) population in the Bay of Izmena, Kunashir Island

Regularities of distribution and primary production of an Ahnfeltia tobuchiensis (Kanno et Matsubara) Mak. population, an agar-containing red alga, were studied in the Bay ot Izmena. Experiments were conducted in a flow-through system under conditions similar to algal habitats. The population of A. tobuchiensis unattached to the ground may be from a few centimeters to as much as 1 m thick. It has been shown that only the upper part of a stratum 15–20 cm thick receives a sufficient amount ot light to realize its production potential. While 15–20% of photosynthetically active radiation (PAR) of that falling on the water surface reaches the stratum surface, only 0.1% of PAR from that falling on the water surface penetrates through stratum 15 cm thick. It has been shown for A. tobuchiensis that its photosynthetic rate curve during the daytime mainly follows the PAR intensity curve. The highest values of photosynthetic rate have been measured in the afternoon when PAR reaches its maximum. It is noted that a stratum 15–20 cm thick has peak values ot net primary production (NPP) which averages 3.2 g C m^?2 day^?1. The total area of A. tobuchiensis population was 23.4 km², and its biomass was 125 000 tons in this area. On average, the NPP of the A. tobuchiensis population made up in summer and in autumn was 46.8 and 25.0% of its biomass, respectively.     

Optimization of culture conditions and continuous production of chitosan by the fungi,Absidia coerulea

The production of chitosan from the mycelia ofAbsidia coerulea was studied to improve cell growth and chitosan productivity. Culture conditions were optimized in batch cultivation (pH 4.5 agitator speed of 250 rpm, and aeration rate of, 2 vvm) and the maximum chitosan concentration achieved was 2.3 g/L under optimized conditions. Continuous culture was carried out successfully by the formation of new growth spots under optimized conditions, with a chitosan productivity of 0.052 gL⁻¹ h⁻¹, which is the highest value to date, and was obtained at a dilution rate of 0.05 h⁻¹. Cell chitosan concentrations reached about 14% in the steady state, which is similar to that achieved in batch culture. This study shows that for the continuous culture ofAbsidia coerulea it is vital to control the medium composition.