Population Genetic Structure of Astyanax scabripinnis (Teleostei, Characidae) from an Urban Stream

Despite the great anthropogenic interference on urban streams, information is still scarce about the genetic variability and structure of native fish populations inhabiting such streams. In the present study, random amplified polymorphic DNA (RAPD) markers were used to analyze genetic variability and structure of populations assigned to the Neotropical fish species Astyanax scabripinnis from an urban stream located in Londrina, Paraná State, southern Brazil. Thirty individuals of this species were collected from three sites throughout the upper Cambé stream. A total of 10 primers amplified 159 loci, of which 128 (80.5%) were polymorphic. Each of the three populations showed very similar proportions of polymorphic loci, which ranged from 63.5 to 64.8%. Unbiased genetic distances varied from 0.0612 to 0.0646. Theta_p-test values indicated moderate to high genetic differentiation among individuals from different localities. The number of migrants varied from 1.34 to 1.46, suggesting a low gene flow between populations. The genetic similarity among all individuals studied ranged from 0.424 to 0.848. The results suggest that populations of A. scabripinnis in Cambé stream are undergoing genetic differentiation.     

Abundance of Three Bacterial Populations in Selected Streams

The population sizes of three bacterial species, Acinetobacter calcoaceticus, Burkholderia cepacia, and Pseudomonas putida, were examined in water and sediment from nine streams in different parts of the United States using fluorescent in situ hybridization (FISH). Population sizes were determined from three sites (upstream, midstream, and downstream) in each stream to compare differences in the occurrence and distribution of the species within each stream and among streams. Physical and chemical variables measured reflected differences in environmental conditions among the streams. In the water, B. cepacia numbers were highest in the agricultural, Iowa stream. P. putida numbers were highest in the southern coastal plain streams, Black Creek (GA) and Meyers Branch (SC). Compared to the other two species, the abundance of A. calcoaceticus was similar in all the streams. In sediment, the greatest abundance of all three species was found in the Iowa stream, while the lowest was in Hugh White Creek (NC). Detrended correspondence analysis (DCA) explained 95.8% and 83.9% of the total variation in bacterial numbers in water and sediment of the streams, respectively. In sediments and water, B. cepacia numbers were related to nitrate concentrations. A. calcoaceticus in water clustered with several environmental variables (i.e., SRP, pH, and conductivity) but benthic populations were less well correlated with these variables. This study reveals the potential influence of various environmental conditions on different bacterial populations in stream communities.     

Spatial variability in macroinvertebrate assemblages along and among neighbouring equatorial glacier‐fed streams

1. During the past two decades, understanding of the structure and function of glacier‐fed stream ecosystems at temperate latitudes has increased substantially. In contrast, information on their tropical counterparts is very limited. We studied three neighbouring glacier‐fed streams in the tropical Andes of Ecuador. Our main goals were (i) to determine overall longitudinal patterns in density, taxon richness and the composition of macroinvertebrate assemblages and driving factors in equatorial glacial streams and (ii) to examine variability among replicate streams in faunal metrics and assemblages, and stream‐specific effects of supposed environmental key factors. 2. We measured four geographical and 17 environmental factors and collected five Surber samples (500 cm²) of macroinvertebrates at each of nine sites, three sites along three streams. The streams were located 1–5 km apart. In each stream, the three sites were placed at comparable distances from the glacier and were grouped as ‘upper’ (50–200 m), ‘middle’ (1.5 km) and ‘lower’ sites (3.5–5.6 km). 3. In total, 2200 individuals (64% chironomids) were collected and 47 taxa (30 dipterans, 18 of these Chironomidae) identified. Density ranged from 176 to 372 ind. m^?2, and the number of taxa ranged from 2 to 6 at the upper sites and 868–3044 ind. m^?2 and 21–27 taxa at the lower sites. Density, number of taxa, rarefied richness and axis‐1 coordinates from a MDS ordination increased logarithmically with distance from the glacier. These faunal metrics were equally related to altitude and glacier per cent of catchment and correlated with maximum conductivity, mean temperature, mean daily maximum temperature and a channel stability index. As expected, the mean difference in distance decay in similarity was higher at the upper (47% km^?1) than at the lower reaches (20% km^?1) of the streams. 4. The number of taxa varied among sites within the upper and middle groups, but not among the lower sites. In contrast, but in accordance with our expectation, assemblage composition did not differ among upper sites but did so at middle and lower sites, following a supposed decrease in environmental harshness along the streams. Relationships between faunal metrics and the four environmental variables mean temperature, the stability index, chlorophyll a and coarse particulate organic matter also varied among the three streams. Generalised linear model analyses revealed that temperature interacted with stream on macroinvertebrate density, while chlorophyll a had a significant effect on the number of taxa in interaction with stream and stability. 5. The basic predictions of the Milner et al. (2001a) , model regarding longitudinal faunal patterns and temperature and stability as main driving factors were met by our three replicate equatorial glacial streams. Qualitative departures from the model were mainly because of zoogeographical differences. We demonstrated that variability in assemblages between comparable sites in closely situated streams was considerable, and the effect of key environmental factors varied among streams and interacted with other factors. Quantifying spatial variation in benthic assemblages may help us foresee possible consequences for biodiversity as a result of glacial retreat.     

Leaf‐litter colonisation and breakdown in relation to stream typology: insights from Mediterranean low‐order streams

1. Scant information is available on leaf breakdown in streams of arid and semiarid regions, including the Mediterranean, where environmental heterogeneity can be high and the relationship between stream characteristics and leaf breakdown is poorly known. We tested the hypotheses that differences in leaf breakdown metrics would be substantially higher between mountain and lowland Mediterranean streams than among streams within each subregion and that variability among streams would be substantially higher in the lowlands, because permanent reaches in the semiarid lowland streams are rare and isolated. 2. We compared leaf breakdown and associated dynamics of nutrients, fungi and invertebrates in low‐order Mediterranean streams draining sub‐humid forests in the Sierra Nevada Mountains and nearby semiarid lowlands of south‐eastern Spain. Streams differed between the two subregions mainly in water ion content, temperature and riparian tree cover. We detected higher environmental heterogeneity among streams within the lowlands compared to the Sierra Nevada mountain range. In the lowlands, breakdown coefficients (k) of alder leaves spanned almost the entire range reported for this species from temperate streams, overlapping with less variable breakdown coefficients in the Sierra Nevada. 3. The high variability of k values among the lowland sites appeared to be caused primarily by variability in the composition and abundance of a few leaf‐consuming invertebrate taxa, particularly the snail Melanopsis praemorsa. Fungal and nutrient dynamics were less variable among sites within each subregion. 4. These results indicate that the critical condition for stream functional assessment of well‐constrained breakdown rates, or related metrics, could be met at reference sites within homogenous bio‐geo‐climatic regions such as the Sierra Nevada. By contrast, in heterogeneous areas such as the semiarid lowland streams, natural variability of breakdown rates can greatly exceed the magnitude of effects expected in response to anthropogenic disturbances.     

Analysis of denitrifying communities in streams from an urban and non-urban catchment

Urbanization leads to degradation in water quality and has a major effect on the biota of streams, but its effect on microbial communities is not as well understood. DNA-techniques that target functional genes are being used to examine microbial communities, but less frequently applied to freshwater aquatic systems. Our aim was to determine whether terminal restriction fragment length polymorphism and sequence analysis of polymerase chain reaction-amplified (PCR) nosZ gene sequences could be used to show if there were measurable differences in the denitrifying community in two urban streams in catchments with contrasting degrees of catchment urbanization. Community structure in the sediments and associated riparian zones were studied at the contrasting sites. We showed that the denitrifying community in the sediments and riparian soils of the two streams were significantly different. There were also significant differences between the sediment and riparian zone communities within each of the sites. Terminal restriction fragment length polymorphism analysis proved to be a valuable technique that could resolve patterns of the denitrifying community in streams of contrasting degrees of urbanization, but sequence analysis was required to confirm the identity of the amplified products.     

Genotyping Assessment of Phosphate Solubilizing Bacteria Isolated from Rhizospheric Soil from Central Regions of Lucknow

Abstract

Phosphate solubilizing bacteria (PSB) can convert insoluble form of phosphorous (P) to an available form which is a major concern in Indian agriculture. In this study, 21 isolates having phosphate solubilizing capability were isolated from different regions of Lucknow, India. Among all, six efficient PSB were confirmed by using in vitro P estimation and 16S rRNA universal primers. The similarity detection was done using random amplified polymorphic DNA (RAPD) finger printing for genotyping the PSB isolates and to determine genetic relatedness between them. Twenty different OPA primers were tested among which four primers produced prominent, highly reproducible, and polymorphic bands. An average of 10.5 polymorphic bands per primer with the amplified DNA fragments ranging from 200 to 2000?bp in size. A dendrogram constructed from these data indicated 25–76% homology. Highest similarity was found in between Bacillus anthracis and Bacillus cereus with 33.8% similarity while least dissimilarity was found in B. anthracis and Pseudomonas fragi with 12% of similarity. These findings provide that there is a great genetic diversity between bacterial isolates from different geographical regions and RAPD can be used as a specific, time consuming and also proves as a reliable molecular tool which helps in strain level discrimination.     

Metabolic patch dynamics in small headwater streams: exploring spatial and temporal variability in benthic processes

1. To gain a better understanding of the heterotrophic nature of small headwater streams in forested landscapes we explored the spatial and temporal variability of in‐stream organic matter processes. Three methods were used to measure the benthic metabolism of different in‐stream habitats in seven streams throughout a calendar year. This allowed us to analyse the contribution of various metabolic habitats (i.e. sediment, leaf litter, cobbles) to in‐stream metabolism during a natural flow regime. Furthermore, it allowed us to define in‐stream patchiness based on functional rather than structural elements. 2. Bacterial growth, measured using a leucine assay, displayed a quadratic relationship over time with a peak in warmer months and consistently higher bacterial growth in fine depositional (3.00–710.64 mg C m^?2 day^?1) than coarse gravel (38.84–582.85 mg C m^?2 day^?1) sediments. 3. Community metabolism, measured using dissolved oxygen chambers, showed distinct diel patterns and consistently greater net daily metabolism in leaf packs (?261.76 to ?24.50 mg C m^?2 day^?1) than fine depositional sediments (?155.00 to ?15.56 mg C m^?2 day^?1). Coarse gravel sediments (?49.55 to ?16.88 mg C m^?2 day^?1) and cobble habitats (?151.98 to 55.38 mg C m^?2 day^?1) exhibited the lowest metabolic rates. Modelled whole‐stream metabolism was highly variable among streams and temporal patterns appeared driven by temperature and the relative contribution of patch configuration as a function of flow. 4. Cellulose decomposition potential showed higher rates of microbial activity in fine depositional compared to coarse gravel sediments (30.5 and 29.1 kg average cotton tensile strength loss respectively), though there were higher rates of thread loss indicative of macroinvertebrate activity in gravel compared to depositional sediment (21% and 13% average thread loss respectively), with a slight quadratic trend. The high variability among habitats, streams and over time in this integrative measure may be explained by variability in local microbial activity as well as the potential for macroinvertebrates to contribute across patches. 5. There were strong relationships among benthic processes and habitat structure, nutrient status, stream temperature and flow. Different habitats had distinct metabolic characteristics and these characteristics appear to influence stream food webs and biogeochemical cycling depending on the relative abundance of habitats. Generally, within habitat variability was less than among habitat variability and among stream variability was less than temporal variability. Hence, in terms of the spatial and temporal heterogeneity of benthic processes, these small headwater streams showed predictable metabolic patterns. However, there were few correlations between differing measures of benthic metabolism at the same patch and this suggests that caution should be taken when attempting to infer the rates of one level of metabolic activity (e.g. whole community metabolism) based on another (e.g. bacterial productivity).     

Storage and decomposition of particulate organic matter along the longitudinal gradient of an agriculturally-impacted stream

An agriculturally-impacted stream in northern Idaho was examined over a two-year period to determine seasonal and longitudinal patterns of the storage and decomposition of particulate organic matter. Biomass of benthic organic matter (BOM) was considerably less than values reported in the literature for comparable, undisturbed streams. Coarse, fine, and total benthic particulate organic matter were not correlated with parameters pertaining to stream size (e.g., stream order), but were correlated with sample site and amount of litterfall. The association of BOM with site and litterfall suggests that storage of particulate organic matter is a function of local characteristics rather than stream size. Low biomass of stored organic matter is a response to the low input of terrestrially-derived organic matter resulting from removal of climax vegetation.Leaf packs of alder, Alnus sp., were placed in the stream seasonally for 30 and 60 d. While there were significant differences for months, there was no significant difference among sites for leaf packs exposed for 30 d. Significant differences were observed among both sites and months for leaf packs exposed for 60 d; however, differences among sites accounted for only 5% of the variance. The absence of differences in decomposition of organic matter along the gradient of Lapwai Creek, despite heterogeneity of the drainage basin and availability of organic matter, may be in response to the overall low biomass of stored benthic organic matter. This study demonstrates that agricultural activity can substantially influence instream heterotrophic processes through reduced availability of organic matter and can shape community structure and ecosystem dynamics of streams flowing through agricultural drainage basins.     

Bacterial Community Composition in Central European Running Waters Examined by Temperature Gradient Gel Electrophoresis and Sequence Analysis of 16S rRNA Genes

The bacterial community composition in small streams and a river in central Germany was examined by temperature gradient gel electrophoresis (TGGE) with PCR products of 16S rRNA gene fragments and sequence analysis. Complex TGGE band patterns suggested high levels of diversity of bacterial species in all habitats of these environments. Cluster analyses demonstrated distinct differences among the communities in stream and spring water, sandy sediments, biofilms on stones, degrading leaves, and soil. The differences between stream water and sediment were more significant than those between sites within the same habitat along the stretch from the stream source to the mouth. TGGE data from an entire stream course suggest that, in the upper reach of the stream, a special suspended bacterial community is already established and changes only slightly downstream. The bacterial communities in water and sediment in an acidic headwater with a pH below 5 were highly similar to each other but deviated distinctly from the communities at the other sites. As ascertained by nucleotide sequence analysis, stream water communities were dominated by Betaproteobacteria (one-third of the total bacteria), whereas sediment communities were composed mainly of Betaproteobacteria and members of the Fibrobacteres/Acidobacteria group (each accounting for about 25% of bacteria). Sequences obtained from bacteria from water samples indicated the presence of typical cosmopolitan freshwater organisms. TGGE bands shared between stream and soil samples, as well as sequences found in bacteria from stream samples that were related to those of soil bacteria, demonstrated the occurrence of some species in both stream and soil habitats. Changes in bacterial community composition were correlated with geographic distance along a stream, but in comparisons of different streams and rivers, community composition was correlated only with environmental conditions.     

Ecological response differentials: an alternative benchmark to inform stream and river bioassessment

相似文献   

Changes in Community Structure of Sediment Bacteria Along the Florida Coastal Everglades Marsh–Mangrove–Seagrass Salinity Gradient

Community structure of sediment bacteria in the Everglades freshwater marsh, fringing mangrove forest, and Florida Bay seagrass meadows were described based on polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) patterns of 16S rRNA gene fragments and by sequencing analysis of DGGE bands. The DGGE patterns were correlated with the environmental variables by means of canonical correspondence analysis. There was no significant trend in the Shannon–Weiner index among the sediment samples along the salinity gradient. However, cluster analysis based on DGGE patterns revealed that the bacterial community structure differed according to sites. Not only were these salinity/vegetation regions distinct but the sediment bacteria communities were consistently different along the gradient from freshwater marsh, mangrove forest, eastern-central Florida Bay, and western Florida Bay. Actinobacteria- and Bacteroidetes/Chlorobi-like DNA sequences were amplified throughout all sampling sites. More Chloroflexi and members of candidate division WS3 were found in freshwater marsh and mangrove forest sites than in seagrass sites. The appearance of candidate division OP8-like DNA sequences in mangrove sites distinguished these communities from those of freshwater marsh. The seagrass sites were characterized by reduced presence of bands belonging to Chloroflexi with increased presence of those bands related to Cyanobacteria, γ-Proteobacteria, Spirochetes, and Planctomycetes. This included the sulfate-reducing bacteria, which are prevalent in marine environments. Clearly, bacterial communities in the sediment were different along the gradient, which can be explained mainly by the differences in salinity and total phosphorus.     

Ecology of leaf pack macroinvertebrate communities in streams of the Fraser River Basin, British Columbia

1. To characterise geographic and small scale variation in the structure of macroinvertebrate communities in stream leaf packs, we collected one to three natural leaf pack communities from 119 reference streams in the Fraser River Basin and quantified their variability and correlation with aspects of the stream environment at several scales. We also sampled leaf packs in 19 test streams in the same geographic area exposed to stressors (nine logged, seven farmed, three mined catchments) to evaluate the leaf pack community as a tool for bioassessment. 2. There was substantial variation in the composition of invertebrate communities in leaf packs among reference streams of the Fraser River Basin. Capnia and Zapada (stoneflies), Baetis and Ephemerella (mayflies) and Tvetnia (midge) were the most common taxa found in the leaf packs. There were three types of assemblages identified by non‐metric multidimensional scaling; Capnia, Baetis and Ephemerella communities. 3. Leaf pack communities from the 19 test streams were plotted on a non‐metric multidimensional scaling ordination of the reference communities, and 14 of 19 sites fell outside the 80% confidence ellipse of the reference sites, including eight of nine logged, four of seven farmed and one of three mined catchments. Most of these streams plotted on the ordination near the Ephemerella reference communities. Reference stream communities had a similar number of genera per leaf pack (12.0) and genera per site (18.7) as the test streams (12.6 genera per leaf pack and 18.7 genera per site). Among the test sites, the farmed catchments had higher genera per leaf pack (17.8) and genera per site (21.9) than either the logged (11.5 genera per leaf pack; 19.9 genera per site) or mined (3.4 genera per leaf pack; 7.7 genera per site) catchments. 4. Heterogeneity of leaf pack communities within a site decreased as the number of genera found at the site increased. This was determined by allometric regression of the number of genera found at a site on the maximum number of genera possible, given the average number found per leaf pack. 5. There was a significant relationship between the composition of the leaf pack invertebrate community and stream geography (latitude, longitude, altitude, stream order). Canonical correspondence analysis showed differences among ‘big river’, ‘mountain stream’ and ‘southern’ communities. 6. There was no relationship between the composition of the leaf pack invertebrate community and stream channel and flow characteristics (bank dimensions, flow, slope). There was a significant relationship between the composition of the leaf pack invertebrate community and water quality of the stream (oxygen, nitrogen, phosphorus, conductivity, pH, temperature). ‘Cold, oxygen rich water’ communities were distinguishable from communities in streams with warmer, lower oxygen concentration. ‘High nutrient water’ communities were also distinct from communities in low nutrient streams. There was no relationship between the composition of the leaf pack invertebrate community and the nature of the leaf pack itself (i.e. morphology, decomposition, coniferous needle content). 7. Invertebrate communities in leaf packs show substantial, interpretable variation among reference streams. They are sensitive to human stressors at a landscape scale such as forestry and agriculture. Their diversity and composition varies at different spatial scales in a way that is at least partially explained by the environment of the stream and its catchment area.     

Characterization of benthic bacterial assemblages in a polluted stream using denaturing gradient gel electrophoresis

To study differences in bacterial assemblages among sites with different environmental conditions, sediment samples were collected from three sites along a South Carolina (U.S.A.) coastalplain stream with varying levels of anthropogenic perturbation. The objective of this study was to compare the bacterial assemblages among these sites to detect possible impacts from the disturbance. To accomplish this comparison, DNA was extracted from the samples and subjected to the polymerase chain reaction using primers designed to amplify bacterial 16S rRNA genes. Relative measures of bacterial genetic diversity, assessed using denaturing gradient gel electrophoresis (DGGE), revealed greater numbers of unique sequences at the disturbed sites. The number of bands, which is analogous to species richness, did not vary predictably among sites. Similarity indices revealed a high level of similarity among replicate samples from each site and low similarity between samples from different sites. This study demonstrated that bacterial assemblages differed among sites and that the presence or absence of certain species, represented by unique DGGE bands, differed among sites; unique bands were most commonly encountered at the disturbed sites. Based on the evidence gathered, we conclude that benthic bacterial assemblages vary longitudinally and that anthropogenic disturbance may alter the bacterial component of streams.     

Spatial population genetic structure reveals strong natal site fidelity in Echinocladius martini (Diptera: Chironomidae) in northeast Queensland,Australia

1. A diverse array of patterns has been reported regarding the spatial extent of population genetic structure and effective dispersal in freshwater macroinvertebrates. In river systems, the movements of many taxa can be restricted to varying degrees by the natural stream channel hierarchy. 2. In this study, we sampled populations of the non‐biting freshwater midge Echinocladius martini in the Paluma bioregion of tropical northeast Queensland to investigate fine scale patterns of within‐ and among‐stream dispersal and gene flow within a purported historical refuge. We amplified a 639‐bp fragment of mitochondrial cytochrome c oxidase subunit I and analysed genetic structure using pairwise Φ_ST, hierarchical amova , Mantel tests and a parsimony network. Genetic variation was partitioned among stream sections, using Streamtree , to investigate the effect of potential instream dispersal barriers. 3. The data revealed strong natal site fidelity and significant differentiation among neighbouring, geographically proximate streams. We found evidence for only episodic adult flight among sites on separate stream reaches. Overall, however, our data suggested that both larval and adult dispersal was largely limited to within a stream channel. 4. This may arise from a combination of the high density of riparian vegetation physically restricting dispersal and from the joint effects of habitat stability and large population sizes. Together these latter may make it more likely that upstream populations will persist, even in the absence of regular compensatory upstream flight, and will thus reduce the adaptive value of dispersal among streams. Taken together, these data suggest that dispersal of E. martini is highly restricted, to the scale of only a few kilometres, and hence occurs predominantly within the natal stream.     

Agricultural land use and black fly (Diptera,Simuliidae) species richness and species assemblages in tropical streams,Northeastern Thailand

Habitat degradation through agricultural land use is the major factor threatening lotic ecosystems. Although black flies are major components of these ecosystems, the impact of agricultural land use on species diversity and species assemblages has been largely ignored in tropical streams of the Oriental region. The objectives of this study are to examine patterns of species distribution and species richness and to compare black fly species richness and species assemblages in forest and agricultural streams in Thailand. A total of 143 collections were made from 70 stream sites between June 2007 and May 2008. Whereas 19 black fly species found in these collections were all found in forest sites, only 13 species were found in agricultural sites. High species richness was associated with larger, faster, and cooler streams with larger streambed particles and the presence of riparian trees. Logistic regression analyses revealed that stream size, velocity, and riparian vegetation are among the most important factors determining patterns of spatial distribution. The results are largely consistent with studies in other zoogeographic regions, suggesting the existence of general rules for black fly species distributions. Comparisons of the physicochemical conditions between forest and agricultural streams indicated that streams in agricultural areas are warmer, with higher conductivity and fewer riparian trees. Species richness was significantly higher in forest than in agricultural streams (t = 3.61, P < 0.001). Streams in forest areas were predominantly occupied by S. siamense (73%) but other species were also found at a relatively high frequency (>20%) of the sampling sites. In contrast, streams in agricultural areas were predominantly occupied by S. aureohirtum (>80%) among the sole black fly species at 27% of the sites. The results indicate that agricultural land use has a significantly detrimental impact on black fly diversity and species assemblages. Handling editor: D. Dudgeon     

Environmental and spatial influences on benthic community composition in wooded headwater streams in Zoar Valley, New York, USA

This study determined the relative influences of environmental variation versus spatial autocorrelation on benthic macroinvertebrate community composition of temperate headwater streams. We enumerated fauna in riffle zones of 23 separate (i.e., not tributaries to each other) but closely grouped from first- to third-order woodland streams surrounding Zoar Valley Canyon, western New York State, USA, during spring, summer, and fall of 2006. Watershed geomorphology (stream order, catchment area, and forest cover) and semi-quantitative habitat characteristics, the latter of which were incorporated into a Qualitative Habitat Evaluation Index (QHEI), were also recorded for each stream. Non-metric Multidimensional Scaling (NMDS) ordination was used to establish patterns of biotic similarity among these streams. Matrices of biological and environmental Euclidean distances were constructed for all between-stream pairings. Additionally, a between-stream spatial matrix was constructed based on global position system coordinates of sampling sites. Non-significant partial Mantel coefficients indicated that biological distances were uncorrelated with spatial distances both among all 23 study streams and among 12 first-order streams only. In contrast, biological distances were positively correlated with environmental distances (r _M = 0.375 and 0.289 for all streams and for first-order streams only, respectively; P values < 0.05). Environmental and spatial distances were uncorrelated (partial Mantel P values > 0.05), indicating that the measured environmental characteristics were not spatially structured. Each of the geomorphological and habitat variables was statistically associated with NMDS community composition axes (stepwise multiple regression, one-factor MANOVA). These results suggest that environmental filters and niche-based species sorting may operate here between separate streams, and that study sites appear to be effectively insular in their biota despite close physical proximity. Handling editor: Sonja Stendera     

Genetic variation in Batrachospermum helminthosum (Batrachospermales, Rhodophyta) among and within stream reaches using intersimple sequence repeat molecular markers

Intersimple sequence repeat molecular markers were utilized to investigate the genetic relationship among individual gametophyte thalli of the freshwater red alga Batrachospermum helminthosum among distant stream reaches and within a stream reach. Fifteen thalli per stream reach were sampled from 11 streams throughout the known distribution in eastern North America from three locations in Ohio, and one location in Indiana, Michigan, North Carolina, Tennessee, Louisiana, Rhode Island, Massachusetts and Connecticut. The pairwise φ_ST analysis showed significant genetic differences (P<0.05) among all streams. The partitioning of genetic variation was almost equal within and among streams (45% and 55%, respectively). Genetic variation among populations did not reflect geographic distance, suggesting that long distance dispersal may be important in the distribution of this alga. Fifty‐eight individuals from Five Mile Creek, Ohio, were investigated from three distinct segments of the stream (upstream, middle and downstream) to examine small‐scale genetic variation within a stream reach. A much higher proportion of genetic variation was observed within a stream segment (79%) than among the three segments (21%). Among these stream segments within Five Mile Creek, the individuals were variously related, with genetic similarity and spatial distance uncorrelated. A similar result was obtained among individuals within other stream reaches, suggesting that genetic structure within a stream reach may be more complex than just reproduction among closely located individuals.     

Comparative analysis of genetic variation among <Emphasis Type="Italic">Xanthomonas axonopodis pv manihotis</Emphasis> isolated from the western states of Nigeria using RAPD and AFLP

Xanthomonas axonopodis pv manihotis is the causal agent of cassava bacterial blight (CBB) worldwide. CBB disease is a major constraint to cassava cultivation, and losses can be extremely severe in regions where highly susceptible cultivars are grown. To develop an efficient disease management policy, the genetic diversity of the pathogens population must be known. There is dearth of information on the genetic diversity of X. axonopodis pv manihotis population in Nigeria. We used RAPD (random amplified polymorphic DNA) and AFLP (amplified fragment length polymorphism), a PCR-based technique, to characterize the X. axonopodis pv manihotis isolates from the western States of Nigeria. Thirteen strains Xam and 2 reference strains were tested with eight primers combination of AFLP and 4 RAPD primers. RAPD amplified DNA fragment data showed four major clusters at 80 % similarity coefficient level and two strains were not clustered by this analysis. Strains Kwa76A and Ond48A were also separated in the principal component analysis of the same data. Numerical analysis differentiated the AFLP patterns into four distinct clusters and grouped two strains separately at 66 % similarity. PCA assembly grouped the bacterial strains into 4 and one of the strains was singled out from the others. The two DNA analyses techniques seem to be complimentary to one another and informative on the genomic structure of Xam population in Western Nigeria. The genetic analysis presented here contributes to understanding of the Xam population structure in Western Nigeria.     

Diatom Assemblages and their Associations with Environmental Variables in Oregon Coast Range Streams, USA

The Oregon Coast Range, rich in natural resources, is under increasing pressure from rapid development. The purpose of this study was to examine diatom species patterns in relation to environmental variables in streams of this region. Diatoms, water quality, physical habitat and watershed characteristics were assessed for 33 randomly selected stream sites. Watershed size, elevation, geology, vegetation and stream morphology varied substantially among sites. Streams were characterized by dilute water chemistry and a low percent of fine substrate. A total of 80 diatom taxa were identified. Taxa richness was low throughout the region (median 15, range 10–26). Assemblages were dominated by two adnate species, Achnanthidium minutissimum and Achnanthes pyrenaicum. Diatoms sensitive to organic pollution dominated the assemblages at all sites (median 85%). Non-metric multidimensional scaling (NMDS) and correlational analysis showed quantitative relationships between diatom assemblages and environmental variables. NMDS axes were significantly correlated with watershed area, watershed geology, conductivity, total nitrogen, total solids and stream width. Diatom-based site classification (Two-way Indicators Species Analysis, (TWINSPAN)) yielded 4 discrete groups that displayed weak correlations with environmental variables. When stream sites were classified by dominant watershed geology, overall diatom assemblages between groups were significantly different (Analysis of Similarity (ANOSIM) global R = 0.19, p < 0.05). Our results suggest that streams in the coastal region are in relatively good condition. High natural variability in stream conditions in the Oregon Coast Range ecoregion may obscure quantitative relationships between environmental variables and diatom assemblages. A bioassessment protocol that classifies sites by major landscape variables and selects streams along the major human disturbance gradient might allow for detection of early signs of human disturbance in environmentally heterogeneous regions, such as the Pacific Northwest.