Fidelity to migratory destinations is an important driver of connectivity in marine and avian species. Here we assess the role of maternally directed learning of migratory habitats, or migratory culture, on the population structure of the endangered Australian and New Zealand southern right whale. Using DNA profiles, comprising mitochondrial DNA...
Fidelity to migratory destinations is an important driver of connectivity in marine and avian species. Here we assess the role of maternally directed learning of migratory habitats, or migratory culture, on the population structure of the endangered Australian and New Zealand southern right whale. Using DNA profiles, comprising mitochondrial DNA...
Capture-recapture studies offer a powerful tool to assess abundance, survival and population rate of change (λ). A previous capture-recapture study, based on DNA profiles, estimated that the IUCN-listed Endangered Oceania population of humpback whales had a superpopulation size of 4329 whales (95% confidence limits, CL: 3345, 5315) and λ =...
Capture-recapture studies offer a powerful tool to assess abundance, survival and population rate of change (λ). A previous capture-recapture study, based on DNA profiles, estimated that the IUCN-listed Endangered Oceania population of humpback whales had a superpopulation size of 4329 whales (95% confidence limits, CL: 3345, 5315) and λ =...
Using published dairy cattle liver transcriptomics dataset along with novel blood biomarkers of liver function, metabolism,
and inflammation we have attempted an integrative systems biology approach applying the classical functional enrichment
analysis using DAVID, a newly-developed Dynamic Impact Approach (DIA), and an upstream gene network analysis using
Ingenuity Pathway Analysis...
Using published dairy cattle liver transcriptomics dataset along with novel blood biomarkers of liver function, metabolism,
and inflammation we have attempted an integrative systems biology approach applying the classical functional enrichment
analysis using DAVID, a newly-developed Dynamic Impact Approach (DIA), and an upstream gene network analysis using
Ingenuity Pathway Analysis...
Ligand activation of the aryl hydrocarbon (AHR) has profound effects upon the immunological status of the gastrointestinal tract, establishing and maintaining signaling networks, which facilitate host-microbe homeostasis at the mucosal interface. However, the identity of the ligand(s) responsible for such AHR-mediated activation within the gut remains to be firmly established....
Ligand activation of the aryl hydrocarbon (AHR) has profound effects upon the immunological status of the gastrointestinal tract, establishing and maintaining signaling networks, which facilitate host-microbe homeostasis at the mucosal interface. However, the identity of the ligand(s) responsible for such AHR-mediated activation within the gut remains to be firmly established....
The farnesoid X receptor (FXR) regulates bile acid, lipid and glucose metabolism. Here we show that treatment of mice with glycine-β-muricholic acid (Gly-MCA) inhibits FXR signalling exclusively in intestine, and improves metabolic parameters in mouse models of obesity. Gly-MCA is a selective high-affinity FXR inhibitor that can be administered orally...
The farnesoid X receptor (FXR) regulates bile acid, lipid and glucose metabolism. Here we show that treatment of mice with glycine-β-muricholic acid (Gly-MCA) inhibits FXR signalling exclusively in intestine, and improves metabolic parameters in mouse models of obesity. Gly-MCA is a selective high-affinity FXR inhibitor that can be administered orally...
Fungal hyphae are among the most highly polarized cells. Hyphal polarized
growth is supported by tip-directed transport of secretory vesicles, which accumulate temporarily
in a stratified manner in an apical vesicle cluster, the Spitzenkörper. The exocyst complex
is required for tethering of secretory vesicles to the apical plasma membrane. We...
Fungal hyphae are among the most highly polarized cells. Hyphal polarized
growth is supported by tip-directed transport of secretory vesicles, which accumulate temporarily
in a stratified manner in an apical vesicle cluster, the Spitzenkörper. The exocyst complex
is required for tethering of secretory vesicles to the apical plasma membrane. We...
Anthropogenic and natural stressors often interact to affect organisms. Amphibian populations are undergoing unprecedented declines and extinctions with pesticides and emerging infectious diseases implicated as causal factors. Although these factors often co-occur, their effects on amphibians are usually examined in isolation. We hypothesized that exposure of larval and metamorphic amphibians...
Anthropogenic and natural stressors often interact to affect organisms. Amphibian populations are undergoing unprecedented declines and extinctions with pesticides and emerging infectious diseases implicated as causal factors. Although these factors often co-occur, their effects on amphibians are usually examined in isolation. We hypothesized that exposure of larval and metamorphic amphibians...
Seascape ecology is an emerging discipline focused on understanding how features of the marine habitat influence the
spatial distribution of marine species. However, there is still a gap in the development of concepts and techniques for its
application in the marine pelagic realm, where there are no clear boundaries delimitating...
Seascape ecology is an emerging discipline focused on understanding how features of the marine habitat influence the
spatial distribution of marine species. However, there is still a gap in the development of concepts and techniques for its
application in the marine pelagic realm, where there are no clear boundaries delimitating...
The ongoing retreat of glaciers globally is one of the clearest manifestations of recent global warming associated with rising greenhouse gas concentrations. By comparison, the importance of greenhouse gases in driving glacier retreat during the most recent deglaciation, the last major interval of global warming, is unclear due to uncertainties...
The ongoing retreat of glaciers globally is one of the clearest manifestations of recent global warming associated with rising greenhouse gas concentrations. By comparison, the importance of greenhouse gases in driving glacier retreat during the most recent deglaciation, the last major interval of global warming, is unclear due to uncertainties...
The ongoing retreat of glaciers globally is one of the clearest manifestations of recent global warming associated with rising greenhouse gas concentrations. By comparison, the importance of greenhouse gases in driving glacier retreat during the most recent deglaciation, the last major interval of global warming, is unclear due to uncertainties...
Repetitive sequences present a challenge for genome sequence assembly, and highly similar segmental duplications may
disappear from assembled genome sequences. Having found a surprising lack of observable phenotypic deviations and
non-Mendelian segregation in Arabidopsis thaliana mutants in SEC10, a gene encoding a core subunit of the exocyst
tethering complex, we...
Repetitive sequences present a challenge for genome sequence assembly, and highly similar segmental duplications may
disappear from assembled genome sequences. Having found a surprising lack of observable phenotypic deviations and
non-Mendelian segregation in Arabidopsis thaliana mutants in SEC10, a gene encoding a core subunit of the exocyst
tethering complex, we...
Plant pathogens secrete an arsenal of small secreted proteins (SSPs) acting as effectors that modulate host immunity to
facilitate infection. SSP-encoding genes are often located in particular genomic environments and show waves of concerted
expression at diverse stages of plant infection. To date, little is known about the regulation of...
Plant pathogens secrete an arsenal of small secreted proteins (SSPs) acting as effectors that modulate host immunity to
facilitate infection. SSP-encoding genes are often located in particular genomic environments and show waves of concerted
expression at diverse stages of plant infection. To date, little is known about the regulation of...
The 1994 Northwest Forest Plan (NWFP) shifted federal lands management from a focus on timber production to ecosystem management and biodiversity conservation. The plan established a network of conservation reserves and an ecosystem management strategy on ~10 million hectares from northern California to Washington State, USA, within the range of...
In eukaryotes, ARGONAUTE proteins (AGOs) associate with microRNAs (miRNAs), short
interfering RNAs (siRNAs), and other classes of small RNAs to regulate target RNA or target
loci. Viral infection in plants induces a potent and highly specific antiviral RNA silencing
response characterized by the formation of virus-derived siRNAs. Arabidopsis thaliana has...
In eukaryotes, ARGONAUTE proteins (AGOs) associate with microRNAs (miRNAs), short
interfering RNAs (siRNAs), and other classes of small RNAs to regulate target RNA or target
loci. Viral infection in plants induces a potent and highly specific antiviral RNA silencing
response characterized by the formation of virus-derived siRNAs. Arabidopsis thaliana has...
Iron (Fe) and copper (Cu) are essential cofactors for microbial metalloenzymes, but little is known about the metalloenyzme inventory of anaerobic marine microbial communities despite their importance to the nitrogen cycle. We compared dissolved O₂ , NO₃⁻, NO₂⁻, Fe and Cu concentrations with nucleic acid sequences encoding Fe and Cu-binding...
Iron (Fe) and copper (Cu) are essential cofactors for microbial metalloenzymes, but little is known about the metalloenyzme inventory of anaerobic marine microbial communities despite their importance to the nitrogen cycle. We compared dissolved O₂ , NO₃⁻, NO₂⁻, Fe and Cu concentrations with nucleic acid sequences encoding Fe and Cu-binding...
Iron (Fe) and copper (Cu) are essential cofactors for microbial metalloenzymes, but little is known about the metalloenyzme inventory of anaerobic marine microbial communities despite their importance to the nitrogen cycle. We compared dissolved O₂ , NO₃⁻, NO₂⁻, Fe and Cu concentrations with nucleic acid sequences encoding Fe and Cu-binding...
Resazurin (Raz) and its reaction product resorufin
(Rru) have increasingly been used as reactive tracers to quantify
metabolic activity and hyporheic exchange in streams.
Previous work has indicated that these compounds undergo
sorption in stream sediments. We present laboratory experiments
on Raz and Rru transport, sorption, and transformation,
consisting of...
Resazurin (Raz) and its reaction product resorufin
(Rru) have increasingly been used as reactive tracers to quantify
metabolic activity and hyporheic exchange in streams.
Previous work has indicated that these compounds undergo
sorption in stream sediments. We present laboratory experiments
on Raz and Rru transport, sorption, and transformation,
consisting of...
Resazurin (Raz) and its reaction product resorufin
(Rru) have increasingly been used as reactive tracers to quantify
metabolic activity and hyporheic exchange in streams.
Previous work has indicated that these compounds undergo
sorption in stream sediments. We present laboratory experiments
on Raz and Rru transport, sorption, and transformation,
consisting of...
A feedback between decomposition and litter chemical composition occurs with decomposition altering composition that in turn influences the decomposition rate. Elucidating the temporal pattern of chemical composition is vital to understand this feedback, but the effects of plant species and climate on chemical changes remain poorly understood, especially over multiple...
A feedback between decomposition and litter chemical composition occurs with decomposition altering composition that in turn influences the decomposition rate. Elucidating the temporal pattern of chemical composition is vital to understand this feedback, but the effects of plant species and climate on chemical changes remain poorly understood, especially over multiple...
Polycomb Repressive Complex 2 (PRC2) function and DNA methylation (DNAme) are typically correlated with gene repression. Here, we show that PRC2 is required to maintain expression of maternal microRNAs (miRNAs) and long non-coding RNAs (lncRNAs) from the Gtl2-Rian-Mirg locus, which is essential for full pluripotency of iPSCs. In the absence...
Polycomb Repressive Complex 2 (PRC2) function and DNA methylation (DNAme) are typically correlated with gene repression. Here, we show that PRC2 is required to maintain expression of maternal microRNAs (miRNAs) and long non-coding RNAs (lncRNAs) from the Gtl2-Rian-Mirg locus, which is essential for full pluripotency of iPSCs. In the absence...
To address patterns of genetic connectivity in a mass-aggregating marine fish, we analyzed genetic variation in
mitochondrial DNA (mtDNA), microsatellites, and single nucleotide polymorphisms (SNPs) for Nassau grouper (Epinephelus
striatus). We expected Nassau grouper to exhibit genetic differentiation among its subpopulations due to its reproductive
behavior and retentive oceanographic conditions...
To address patterns of genetic connectivity in a mass-aggregating marine fish, we analyzed genetic variation in
mitochondrial DNA (mtDNA), microsatellites, and single nucleotide polymorphisms (SNPs) for Nassau grouper (Epinephelus
striatus). We expected Nassau grouper to exhibit genetic differentiation among its subpopulations due to its reproductive
behavior and retentive oceanographic conditions...
Resolving the debate surrounding the nature and controls of seasonal variation in the structure and metabolism of Amazonian rainforests is critical to understanding their response to climate change. In situ studies have observed higher photosynthetic and evapotranspiration rates, increased litterfall and leaf flushing during the Sunlight-rich dry season. Satellite data...
Resolving the debate surrounding the nature and controls of seasonal variation in the structure and metabolism of Amazonian rainforests is critical to understanding their response to climate change. In situ studies have observed higher photosynthetic and evapotranspiration rates, increased litterfall and leaf flushing during the Sunlight-rich dry season. Satellite data...
Microbial communities are responsible for the bulk of biogeochemical processing in temporary headwater streams, yet there is still relatively little known about how community structure and function respond to periodic drying. Moreover, the ability to sample temporary habitats can be a logistical challenge due to the limited capability to measure...
Microbial communities are responsible for the bulk of biogeochemical processing in temporary headwater streams, yet there is still relatively little known about how community structure and function respond to periodic drying. Moreover, the ability to sample temporary habitats can be a logistical challenge due to the limited capability to measure...
Microbial communities are responsible for the bulk of biogeochemical processing in temporary headwater streams, yet there is still relatively little known about how community structure and function respond to periodic drying. Moreover, the ability to sample temporary habitats can be a logistical challenge due to the limited capability to measure...
We investigated DNA methylomes of pediatric B-cell
acute lymphoblastic leukemias (B-ALLs) using
whole-genome bisulfite sequencing and high-definition
microarrays, along with RNA expression
profiles. Epigenetic alteration of B-ALLs occurred in
two tracks: de novo methylation of small functional
compartments and demethylation of large intercompartmental
backbones. The deviations were exaggerated
in lamina-associated...
We investigated DNA methylomes of pediatric B-cell
acute lymphoblastic leukemias (B-ALLs) using
whole-genome bisulfite sequencing and high-definition
microarrays, along with RNA expression
profiles. Epigenetic alteration of B-ALLs occurred in
two tracks: de novo methylation of small functional
compartments and demethylation of large intercompartmental
backbones. The deviations were exaggerated
in lamina-associated...
Eukaryotic ribosome biogenesis involves ~200 assembly
factors, but how these contribute to ribosome
maturation is poorly understood. Here, we
identify a network of factors on the nascent 60S subunit
that actively remodels preribosome structure. At its hub is
Rsa4, a direct substrate of the force-generating ATPase
Rea1. We show that...
Gramene is a comparative information resource for plants that integrates data across diverse data domains. In this article,
we describe the development of a quantitative trait loci (QTL) database and illustrate how it can be used to facilitate
both the forward and reverse genetics research. The QTL database contains the...
Gramene is a comparative information resource for plants that integrates data across diverse data domains. In this article,
we describe the development of a quantitative trait loci (QTL) database and illustrate how it can be used to facilitate
both the forward and reverse genetics research. The QTL database contains the...
Gramene is a comparative information resource for plants that integrates data across diverse data domains. In this article,
we describe the development of a quantitative trait loci (QTL) database and illustrate how it can be used to facilitate
both the forward and reverse genetics research. The QTL database contains the...
The Plant Ontology Consortium (POC, http://www.plantontology.org) is a collaborative effort
among model plant genome databases and plant
researchers that aims to create, maintain and
facilitate the use of a controlled vocabulary
(ontology) for plants. The ontology allows users to
ascribe attributes of plant structure (anatomy and
morphology) and developmental stages...