Dataset Information

Quantitative isoform-profiling of highly diversified recognition molecules.

ABSTRACT: Complex biological systems rely on cell surface cues that govern cellular self-recognition and selective interactions with appropriate partners. Molecular diversification of cell surface recognition molecules through DNA recombination and complex alternative splicing has emerged as an important principle for encoding such interactions. However, the lack of tools to specifically detect and quantify receptor protein isoforms is a major impediment to functional studies. We here developed a workflow for targeted mass spectrometry by selected reaction monitoring that permits quantitative assessment of highly diversified protein families. We apply this workflow to dissecting the molecular diversity of the neuronal neurexin receptors and uncover an alternative splicing-dependent recognition code for synaptic ligands.

SUBMITTER: Schreiner D

PROVIDER: S-EPMC4489214 | biostudies-literature | 2015 May

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Quantitative isoform-profiling of highly diversified recognition molecules.

Schreiner Dietmar D Simicevic Jovan J Ahrné Erik E Schmidt Alexander A Scheiffele Peter P

eLife 20150518

Complex biological systems rely on cell surface cues that govern cellular self-recognition and selective interactions with appropriate partners. Molecular diversification of cell surface recognition molecules through DNA recombination and complex alternative splicing has emerged as an important principle for encoding such interactions. However, the lack of tools to specifically detect and quantify receptor protein isoforms is a major impediment to functional studies. We here developed a workflow ...[more]

PMID: 25985086

Similar Datasets

Project description:Agricultural intensification is a leading threat to bird conservation. Highly diversified farming systems that integrate livestock and crop production might promote a diversity of habitats useful to native birds foraging across otherwise-simplified landscapes. At the same time, these features might be attractive to nonnative birds linked to a broad range of disservices to both crop and livestock production. We evaluated the influence of crop-livestock integration on wild bird richness and density along a north-south transect spanning the U.S. West Coast. We surveyed birds on 52 farms that grew primarily mixed vegetables and fruits alone or integrated livestock into production. Crop-livestock systems harbored higher native bird density and richness relative to crop-only farms, a benefit more pronounced on farms embedded in nonnatural landscapes. Crop-livestock systems bolstered native insectivores linked to the suppression of agricultural pest insects but did not bolster native granivores that may be more likely to damage crops. Crop-livestock systems also significantly increased the density of nonnative birds, primarily European Starlings (Sturnus vulgaris) and House Sparrows (Passer domesticus) that may compete with native birds for resources. Models supported a small, positive correlation between nonnative density and overall native bird density as well as between nonnative density and native granivore density. Relative to crop-only farms, on average, crop-livestock systems exhibited 1.5 times higher patch richness, 2.4 times higher density of farm structures, 7.3 times smaller field sizes, 2.4 times greater integration of woody crops, and 5.3 times greater integration of pasture/hay habitat on farm. Wild birds may have responded to this habitat diversity and/or associated food resources. Individual farm factors had significantly lower predictive power than farming system alone (change in C statistic information criterion (?CIC) = 80.2), suggesting crop-livestock systems may impact wild birds through a suite of factors that change with system conversion. Collectively, our findings suggest that farms that integrate livestock and crop production can attract robust native bird communities, especially within landscapes devoted to intensified food production. However, additional work is needed to demonstrate persistent farm bird communities through time, ecophysiological benefits to birds foraging on these farms, and net effects of both native and nonnative wild birds in agroecosystems.

Dataset Information

Quantitative isoform-profiling of highly diversified recognition molecules.

Publications

Quantitative isoform-profiling of highly diversified recognition molecules.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets