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Monterey Bay (monterey + bay)
Selected AbstractsNear real-time, autonomous detection of marine bacterioplankton on a coastal mooring in Monterey Bay, California, using rRNA-targeted DNA probesENVIRONMENTAL MICROBIOLOGY, Issue 5 2009Christina M. Preston Summary A sandwich hybridization assay (SHA) was developed to detect 16S rRNAs indicative of phylogenetically distinct groups of marine bacterioplankton in a 96-well plate format as well as low-density arrays printed on a membrane support. The arrays were used in a field-deployable instrument, the Environmental Sample Processor (ESP). The SHA employs a chaotropic buffer for both cell homogenization and hybridization, thus target sequences are captured directly from crude homogenates. Capture probes for seven of nine different bacterioplankton clades examined reacted specifically when challenged with target and non-target 16S rRNAs derived from in vitro transcribed 16S rRNA genes cloned from natural samples. Detection limits were between 0.10,1.98 and 4.43, 12.54 fmole ml,1 homogenate for the 96-well plate and array SHA respectively. Arrays printed with five of the bacterioplankton-specific capture probes were deployed on the ESP in Monterey Bay, CA, twice in 2006 for a total of 25 days and also utilized in a laboratory time series study. Groups detected included marine alphaproteobacteria, SAR11, marine cyanobacteria, marine group I crenarchaea, and marine group II euryarchaea. To our knowledge this represents the first report of remote in situ DNA probe-based detection of marine bacterioplankton. [source] Design and testing of ,genome-proxy' microarrays to profile marine microbial communitiesENVIRONMENTAL MICROBIOLOGY, Issue 2 2008Virginia I. Rich Summary Microarrays are useful tools for detecting and quantifying specific functional and phylogenetic genes in natural microbial communities. In order to track uncultivated microbial genotypes and their close relatives in an environmental context, we designed and implemented a ,genome-proxy' microarray that targets microbial genome fragments recovered directly from the environment. Fragments consisted of sequenced clones from large-insert genomic libraries from microbial communities in Monterey Bay, the Hawaii Ocean Time-series station ALOHA, and Antarctic coastal waters. In a prototype array, we designed probe sets to 13 of the sequenced genome fragments and to genomic regions of the cultivated cyanobacterium Prochlorococcus MED4. Each probe set consisted of multiple 70-mers, each targeting an individual open reading frame, and distributed along each ,40,160 kbp contiguous genomic region. The targeted organisms or clones, and close relatives, were hybridized to the array both as pure DNA mixtures and as additions of cells to a background of coastal seawater. This prototype array correctly identified the presence or absence of the target organisms and their relatives in laboratory mixes, with negligible cross-hybridization to organisms having , ,75% genomic identity. In addition, the array correctly identified target cells added to a background of environmental DNA, with a limit of detection of ,0.1% of the community, corresponding to ,103 cells ml,1 in these samples. Signal correlated to cell concentration with an R2 of 1.0 across six orders of magnitude. In addition, the array could track a related strain (at 86% genomic identity to that targeted) with a linearity of R2 = 0.9999 and a limit of detection of ,1% of the community. Closely related genotypes were distinguishable by differing hybridization patterns across each probe set. This array's multiple-probe, ,genome-proxy' approach and consequent ability to track both target genotypes and their close relatives is important for the array's environmental application given the recent discoveries of considerable intrapopulation diversity within marine microbial communities. [source] Isotopic tracking of prehistoric pinniped foraging and distribution along the central California coast: preliminary resultsINTERNATIONAL JOURNAL OF OSTEOARCHAEOLOGY, Issue 1 2002R. K. Burton Abstract Zooarchaeological data from Monterey Bay and the adjacent central California coast corroborate earlier observations from northern California and Oregon that Callorhinus ursinus (northern fur seal) was a much more common component in prehistoric marine mammal prey than its present pelagic distribution and foraging habits would predict. C. ursinus remains from mid-Holocene Monterey Bay occurrences are predominantly from female individuals, associated with an inshore piscifauna, and lack associated artifactual evidence for deep water exploitation. Taken together with evidence from Oregon, this suggests that mid-Holocene C. ursinus populations had different foraging, resting, and, arguably, reproductive behaviours than historically reported. Currently debated is whether the contrast between prehistoric and present patterns of pinniped species representation results from: 1) late Holocene prehistoric resource depression by aboriginal hunters, 2) depredations of the early historic fur trade, or 3) non-anthropogenic climatic or oceanographic change. The issue has thus far been addressed with presence or absence data on pinniped species and age/sex classes in dated contexts. While these are fundamental data, they cannot shed light on the nature of foraging behaviour of the species in question, a key dimension of the problem. This paper reports a pilot study utilizing stable isotope analysis aimed to elucidate prehistoric pinniped foraging patterns, specifically that of C. ursinus. Elements from six archaeological sites in Monterey and Santa Cruz counties were analysed for stable isotope compositions of carbon and nitrogen in bone collagen and compared to a latitudinally ordered modern dataset. Results for archaeological C. ursinus strongly suggest that prehistoric animals habitually foraged at lower latitudes than characterize the species today, supporting earlier claims of their year-round residency south of Alaska. Copyright © 2002 John Wiley & Sons, Ltd. [source] POTENTIAL TOOLS FOR TRACKING OCEAN CLIMATE: VARIABILITY IN STABLE ISOTOPES IN LIVING CORALLINE ALGAEJOURNAL OF PHYCOLOGY, Issue 2000R.A. Dunn Our ability to track long term climate change in coastal regions is limited in temperate and polar regions. Physical oceanographic dynamics in temperature and upwelling events can be recorded as carbon and oxygen stable isotope signals in carbonate producing organisms. Because coralline algae photosynthesize, produce calcium carbonate and are widely distributed, they may provide a new tool for detecting short-term change. However, little is known about how coralline algae incorporate stable isotopes into their calcite thallus structure. The objectives of this study were to determine if growth and isotopic signature differ in articulated coralline algae grown in different oceanographic regimes in Monterey Bay. The articulated alga Calliarthron cheiliospororioides was outplanted at three locations varying in seawater temperature and upwelling strength. New algal growth was measured by staining the algae with Alizarin Red and enumerating the amount of accumulated material at the branch tips. Growth rates varied seasonally and spatially. Low-upwelling daily growth rates averaged 0.044,0.056 mm day,1, while high-upwelling growth rates were 0.083 mm day,1. Isotope ratios were obtained by analyzing microsampled portions of the alga in a mass spectrometer. Changes in the 18O/16O and 13C/12C ratios appear to reflect change in seawater temperature and upwelling strength, respectively. [source] Seascape genetics along a steep cline: using genetic patterns to test predictions of marine larval dispersalMOLECULAR ECOLOGY, Issue 17 2010HEATHER M. GALINDO Abstract Coupled biological and physical oceanographic models are powerful tools for studying connectivity among marine populations because they simulate the movement of larvae based on ocean currents and larval characteristics. However, while the models themselves have been parameterized and verified with physical empirical data, the simulated patterns of connectivity have rarely been compared to field observations. We demonstrate a framework for testing biological-physical oceanographic models by using them to generate simulated spatial genetic patterns through a simple population genetic model, and then testing these predictions with empirical genetic data. Both agreement and mismatches between predicted and observed genetic patterns can provide insights into mechanisms influencing larval connectivity in the coastal ocean. We use a high-resolution ROMS-CoSINE biological-physical model for Monterey Bay, California specifically modified to simulate dispersal of the acorn barnacle, Balanus glandula. Predicted spatial genetic patterns generated from both seasonal and annual connectivity matrices did not match an observed genetic cline in this species at either a mitochondrial or nuclear gene. However, information from this mismatch generated hypotheses testable with our modelling framework that including natural selection, larval input from a southern direction and/or increased nearshore larval retention might provide a better fit between predicted and observed patterns. Indeed, moderate selection and a range of combined larval retention and southern input values dramatically improve the fit between simulated and observed spatial genetic patterns. Our results suggest that integrating population genetic models with coupled biological-physical oceanographic models can provide new insights and a new means of verifying model predictions. [source] | ||||||||||