PubMed:25452134 JSON TXT

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PubMed_Structured_Abstracts

Id	Subject	Object	Predicate	Lexical cue
T1	122-1892	UNLABELLED	denotes	Caenorhabditis elegans can be infected by a plethora of pathogens, most of them are also pathogenic for humans. Consequently, the nematode has emerged as a powerful surrogate host to model microbial human infectious diseases in a non-vertebrate, for the study of innate immunity and host-pathogen interactions. Signaling cascades are well investigated that face bacterial or fungal pathogens. We analyzed the downstream processes of these cascades, i.e. the differential expression of effector and regulatory molecules due to a microbial challenge with a pathogenic strain of the bacterium Bacillus thuringiensis (Bt) in comparison to a non-pathogenic Bt strain. The protein abundance profile of the nematode was studied by quantitative proteomics using iTRAQ labeling and 2D-LC-MS analysis. We developed (i) a novel method for the preparation of defined C. elegans samples; (ii) a pooling strategy for fractions in 2D-LC separation schemes; and (iii) an isobaric labeling scheme reducing the number of necessary LC-MS experiments. More than 3,600 proteins were quantified, 288 of which showed altered abundances, implicating protein classes such as lectins, lysozymes, and transthyretin-like proteins to be involved in the nematode innate immune defense. A number of gene products previously only identified by transcriptomic profiling could be verified at the protein level. Moreover, several other protein classes such as proteases, proteins related to autophagy and apoptosis, structural proteins, and proteins involved in chromatin organization were detected. The results provide an overview of the physiological response towards a pathogen at protein level in the important model organism C. elegans, giving insights into highly complex host-pathogen interactions.
T2	1918-2570	UNASSIGNED	denotes	This study identified system-wide effects of Bt intoxication on C. elegans at protein level, expanding the catalogue of immune effectors potentially acting towards the pathogen, and provide verification for numerous gene products implicated in previous transcriptomic studies. The data present evidence in support of both a general defense response as well as a specific reaction against the Bt toxin within the nematode. The described findings will also contribute to a deeper understanding of host-microbe interaction in other organisms, including humans, and may provide key information that touches far reaching aspects of coevolutionary processes.

sentences

Id	Subject	Object	Predicate	Lexical cue
T1	0-109	Sentence	denotes	Quantitative proteome analysis of Caenorhabditis elegans upon exposure to nematicidal Bacillus thuringiensis.
T2	110-121	Sentence	denotes	UNLABELLED:
T3	122-233	Sentence	denotes	Caenorhabditis elegans can be infected by a plethora of pathogens, most of them are also pathogenic for humans.
T4	234-432	Sentence	denotes	Consequently, the nematode has emerged as a powerful surrogate host to model microbial human infectious diseases in a non-vertebrate, for the study of innate immunity and host-pathogen interactions.
T5	433-514	Sentence	denotes	Signaling cascades are well investigated that face bacterial or fungal pathogens.
T6	515-784	Sentence	denotes	We analyzed the downstream processes of these cascades, i.e. the differential expression of effector and regulatory molecules due to a microbial challenge with a pathogenic strain of the bacterium Bacillus thuringiensis (Bt) in comparison to a non-pathogenic Bt strain.
T7	785-913	Sentence	denotes	The protein abundance profile of the nematode was studied by quantitative proteomics using iTRAQ labeling and 2D-LC-MS analysis.
T8	914-1153	Sentence	denotes	We developed (i) a novel method for the preparation of defined C. elegans samples; (ii) a pooling strategy for fractions in 2D-LC separation schemes; and (iii) an isobaric labeling scheme reducing the number of necessary LC-MS experiments.
T9	1154-1377	Sentence	denotes	More than 3,600 proteins were quantified, 288 of which showed altered abundances, implicating protein classes such as lectins, lysozymes, and transthyretin-like proteins to be involved in the nematode innate immune defense.
T10	1378-1498	Sentence	denotes	A number of gene products previously only identified by transcriptomic profiling could be verified at the protein level.
T11	1499-1686	Sentence	denotes	Moreover, several other protein classes such as proteases, proteins related to autophagy and apoptosis, structural proteins, and proteins involved in chromatin organization were detected.
T12	1687-1892	Sentence	denotes	The results provide an overview of the physiological response towards a pathogen at protein level in the important model organism C. elegans, giving insights into highly complex host-pathogen interactions.
T13	1893-1917	Sentence	denotes	BIOLOGICAL SIGNIFICANCE:
T14	1918-2194	Sentence	denotes	This study identified system-wide effects of Bt intoxication on C. elegans at protein level, expanding the catalogue of immune effectors potentially acting towards the pathogen, and provide verification for numerous gene products implicated in previous transcriptomic studies.
T15	2195-2339	Sentence	denotes	The data present evidence in support of both a general defense response as well as a specific reaction against the Bt toxin within the nematode.
T16	2340-2570	Sentence	denotes	The described findings will also contribute to a deeper understanding of host-microbe interaction in other organisms, including humans, and may provide key information that touches far reaching aspects of coevolutionary processes.
T1	0-109	Sentence	denotes	Quantitative proteome analysis of Caenorhabditis elegans upon exposure to nematicidal Bacillus thuringiensis.
T2	110-121	Sentence	denotes	UNLABELLED:
T3	122-233	Sentence	denotes	Caenorhabditis elegans can be infected by a plethora of pathogens, most of them are also pathogenic for humans.
T4	234-432	Sentence	denotes	Consequently, the nematode has emerged as a powerful surrogate host to model microbial human infectious diseases in a non-vertebrate, for the study of innate immunity and host-pathogen interactions.
T5	433-514	Sentence	denotes	Signaling cascades are well investigated that face bacterial or fungal pathogens.
T6	515-784	Sentence	denotes	We analyzed the downstream processes of these cascades, i.e. the differential expression of effector and regulatory molecules due to a microbial challenge with a pathogenic strain of the bacterium Bacillus thuringiensis (Bt) in comparison to a non-pathogenic Bt strain.
T7	785-913	Sentence	denotes	The protein abundance profile of the nematode was studied by quantitative proteomics using iTRAQ labeling and 2D-LC-MS analysis.
T8	914-1153	Sentence	denotes	We developed (i) a novel method for the preparation of defined C. elegans samples; (ii) a pooling strategy for fractions in 2D-LC separation schemes; and (iii) an isobaric labeling scheme reducing the number of necessary LC-MS experiments.
T9	1154-1377	Sentence	denotes	More than 3,600 proteins were quantified, 288 of which showed altered abundances, implicating protein classes such as lectins, lysozymes, and transthyretin-like proteins to be involved in the nematode innate immune defense.
T10	1378-1498	Sentence	denotes	A number of gene products previously only identified by transcriptomic profiling could be verified at the protein level.
T11	1499-1686	Sentence	denotes	Moreover, several other protein classes such as proteases, proteins related to autophagy and apoptosis, structural proteins, and proteins involved in chromatin organization were detected.
T12	1687-1892	Sentence	denotes	The results provide an overview of the physiological response towards a pathogen at protein level in the important model organism C. elegans, giving insights into highly complex host-pathogen interactions.
T13	1893-1917	Sentence	denotes	BIOLOGICAL SIGNIFICANCE:
T14	1918-2194	Sentence	denotes	This study identified system-wide effects of Bt intoxication on C. elegans at protein level, expanding the catalogue of immune effectors potentially acting towards the pathogen, and provide verification for numerous gene products implicated in previous transcriptomic studies.
T15	2195-2339	Sentence	denotes	The data present evidence in support of both a general defense response as well as a specific reaction against the Bt toxin within the nematode.
T16	2340-2570	Sentence	denotes	The described findings will also contribute to a deeper understanding of host-microbe interaction in other organisms, including humans, and may provide key information that touches far reaching aspects of coevolutionary processes.

Glycosmos6-MAT

Id	Subject	Object	Predicate	Lexical cue
T1	356-366	http://purl.obolibrary.org/obo/MAT_0000373	denotes	vertebrate

PubmedHPO

Id	Subject	Object	Predicate	Lexical cue
T1	166-174	HP_0001050	denotes	plethora

mondo_disease

Id	Subject	Object	Predicate	Lexical cue	mondo_id
T1	327-337	Disease	denotes	infectious	http://purl.obolibrary.org/obo/MONDO_0005550
T2	1966-1978	Disease	denotes	intoxication	http://purl.obolibrary.org/obo/MONDO_0029000

Anatomy-MAT

Id	Subject	Object	Predicate	Lexical cue	mat_id
T1	356-366	Body_part	denotes	vertebrate	http://purl.obolibrary.org/obo/MAT_0000373

HP-phenotype

Id	Subject	Object	Predicate	Lexical cue	hp_id
T1	166-174	Phenotype	denotes	plethora	HP:0001050

NCBITAXON

Id	Subject	Object	Predicate	Lexical cue	db_id
T1	34-56	OrganismTaxon	denotes	Caenorhabditis elegans	6239
T2	86-108	OrganismTaxon	denotes	Bacillus thuringiensis	1428
T3	122-144	OrganismTaxon	denotes	Caenorhabditis elegans	6239
T4	252-260	OrganismTaxon	denotes	nematode	6231
T5	321-326	OrganismTaxon	denotes	human	9606
T6	712-734	OrganismTaxon	denotes	Bacillus thuringiensis	1428
T7	736-738	OrganismTaxon	denotes	Bt	1428
T8	774-776	OrganismTaxon	denotes	Bt	1428
T9	822-830	OrganismTaxon	denotes	nematode	6231
T10	1346-1354	OrganismTaxon	denotes	nematode	6231
T11	1963-1965	OrganismTaxon	denotes	Bt	1428
T12	2310-2312	OrganismTaxon	denotes	Bt	1428
T13	2330-2338	OrganismTaxon	denotes	nematode	6231

Anatomy-UBERON

Id	Subject	Object	Predicate	Lexical cue	uberon_id
T1	479-483	Body_part	denotes	face	http://purl.obolibrary.org/obo/UBERON_0001456
T2	1808-1816	Body_part	denotes	organism	http://purl.obolibrary.org/obo/UBERON_0000468
T3	2447-2456	Body_part	denotes	organisms	http://purl.obolibrary.org/obo/UBERON_0000468