Emma Ransome

Emma Ransome
Imperial College London | Imperial · Division of Ecology and Evolution

PhD

About

42
Publications
4,139
Reads
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1,850
Citations
Additional affiliations
September 2008 - June 2012
Plymouth Marine Laboratory
Position
  • PhD Student

Publications

Publications (42)
Article
Full-text available
DNA metabarcoding is an increasingly popular technique to investigate biodiversity; however, many methodological unknowns remain, especially concerning the biases resulting from marker choice. Regions of the cytochrome c oxidase subunit I (COI) and 18S rDNA (18S) genes are commonly employed “universal” markers for eukaryotes, but the extent of taxo...
Preprint
Full-text available
Whether and how whole ecological communities can respond to climate change remains an open question. With their fast generation times and abundant functional diversity, microbes in particular harbor great potential to exhibit community-level adaptation through a combination of strain-level adaptation, phenotypic plasticity, and species sorting. How...
Article
Full-text available
Recent reviews identified the reliance on fecal or cloacal samples as a significant limitation hindering our understanding of the avian gastrointestinal (gut) microbiota and its function. We investigated the microbiota of the esophagus, duodenum, cecum, and colon of a wild urban population of Canada goose (Branta canadensis). From a population samp...
Article
Full-text available
Successful microbial invasions are determined by a species' ability to occupy a niche in the new habitat whilst resisting competitive exclusion by the resident community. Despite the recognised importance of biotic factors in determining the invasiveness of microbial communities, the success and impact of multiple concurrent invaders on the residen...
Article
Full-text available
Untargeted metabolomics of environmental samples routinely detects thousands of small molecules, the vast majority of which cannot be identified. Meta-mass shift chemical (MeMSChem) profiling was developed to identify mass differences between related molecules using molecular networks. This approach illuminates metabolome-wide relationships between...
Article
Full-text available
The advancement of metabarcoding techniques, declining costs of high-throughput sequencing and development of systematic sampling devices, such as autonomous reef monitoring structures (ARMS), have provided the means to gather a vast amount of diversity data from cryptic marine communities. However, such increased capability could also lead to anal...
Data
PERMANOVA and ANOSIMs for motile preservation experiment OTU data (Table A and C, respectively), and data merged by phylum (Table B and D, respectively). (PDF)
Data
One-Way ANOSIMs and Tukey tests showing differences in community composition retrieved by processing method (Table A) and preservation method (Table B). (PDF)
Data
Accuracy of relaxed parameters (≥85% sequence similarity) when assigning to higher-level taxonomic ranks with Blastn. Data shown represent phyla distribution among queries. (PDF)
Data
Raw data (top tables) and overall summary (bottom table) of the quantity of DNA and the percentage of that DNA that is > 1000 bp (as determined by ImageJ analysis) recovered from DNA extractions of sessile and motile ARMS samples across different processing and preservation methods. Bold values indicate low DNA quantity (<100 ng/ul) or quality (<20...
Data
ANOSIMs and Tukey Tests for sessile processing experiment, data merged by phylum. ANOSIMs were carried out across all data for ARMS, processing method and preservation method. Tukey tests reported were calculated from all abundance data (* p ≤ 0.005, ** p ≤ 0.05, *** p > 0.05). (PDF)
Data
One-Way ANOSIMs and Tukey Tests showing differences in community composition retrieved by processing method (OTU data; Table A), preservation method (OTU data; Table B) and differences in community richness retrieved by preservation and preservation method (OTU data; Table C). (PDF)
Data
One-Way ANOSIMs and Tukey tests showing differences in community composition retrieved by processing and preservation method, void of Rhodophyta, for OTU data (Table A) and data merged by phylum (Table B). (PDF)
Data
ANOSIMs and Tukey Tests for sessile processing experiment (OTU data). ANOSIMs were carried out across all data for ARMS, processing method and preservation method. Tukey tests reported were calculated from all abundance data (* p ≤ 0.005, ** p ≤ 0.05, *** p > 0.05). (PDF)
Data
SIMPER analysis of the subset of the communities retrieved from the sessile processing experiment, used in comparison with CPCe (Coral Point Count) data. Tables show phylum level differences in community composition between SIMPROF clusters, which compared community composition data retrieved from different processing methods and CPCe image analysi...
Data
SIMPER analysis showing phylum level differences in community composition across all data from the sessile processing experiment, as retrieved by processing method (Table A; top table) and preservation technique (Table A; bottom table) and partitioned by preservation method (Table B; top two tables) and processing method (Table B; bottom two tables...
Data
Conflicting and altered taxonomies in database searches. (PDF)
Data
PERMANOVA for sessile processing experiment (OTU data). (PDF)
Data
Phylum level identifications of OTUs and their relative abundance by ARMS fraction. Bold text represents most abundant phyla in each fraction. (PDF)
Data
Diversity data for sessile processing experiment, showing number of OTUs (S), species richness (Margalef; d), Pielou's eveness (J'), and Shannon diversity (H'). Based on rarefied abundance data, void of singletons. (PDF)
Data
PERMANOVA for sessile processing experiment, data merged by phylum. (PDF)
Article
Full-text available
The bacterial communities associated with healthy and diseased colonies of the cold water gorgonian coral Eunicella verrucosa at three sites off the south-west coast of England were compared using denaturing gradient gel electrophoresis (DGGE) and clone libraries. Significant differences in community structure between healthy and diseased samples w...
Article
Full-text available
Many marine habitats, such as the surface and tissues of marine invertebrates, including corals, harbour diverse populations of microorganisms, which are thought to play a role in the health of their hosts and influence mutualistic and competitive interactions. Investigating the presence and stability of quorum sensing (QS) in these ecosystems may...
Data
##Assembly-Data-START## Assembly Method :: MEGA v. 5.10 Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
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##Assembly-Data-START## Assembly Method :: MEGA v. 5.10 Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
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##Assembly-Data-START## Assembly Method :: MEGA v. 5.10 Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
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##Assembly-Data-START## Assembly Method :: MEGA v. 5.10 Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
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##Assembly-Data-START## Assembly Method :: MEGA v. 5.10 Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
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##Assembly-Data-START## Assembly Method :: MEGA v. 5.10 Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
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##Assembly-Data-START## Assembly Method :: MEGA v. 5.10 Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
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##Assembly-Data-START## Assembly Method :: MEGA v. 5.10 Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
Data
##Assembly-Data-START## Assembly Method :: MEGA v. 5.10 Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
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##Assembly-Data-START## Assembly Method :: MEGA v. 5.10 Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
Data
##Assembly-Data-START## Assembly Method :: MEGA v. 5.10 Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
Article
Surface ocean pH is likely to decrease by up to 0.4 units by 2100 due to the uptake of anthropogenic CO2 from the atmosphere. Short-term experiments have revealed that this degree of seawater acidification can alter calcification rates in certain planktonic and benthic organisms, although the effects recorded may be shock responses and the long-ter...
Article
Full-text available
The atmospheric partial pressure of carbon dioxide (p(CO(2))) will almost certainly be double that of pre-industrial levels by 2100 and will be considerably higher than at any time during the past few million years. The oceans are a principal sink for anthropogenic CO(2) where it is estimated to have caused a 30% increase in the concentration of H(...

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