BB-norm+ner@ldeleger:BB-norm+ner-21498521
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bionlp-ost-19-BB-norm-ner-train
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Id | Subject | Object | Predicate | Lexical cue | NCBI_Taxonomy | OntoBiotope |
---|---|---|---|---|---|---|
T1 | 0-105 | Title | denotes | The lipid A from Vibrio fischeri lipopolysaccharide: a unique structure bearing a phosphoglycerol moiety. | ||
T2 | 106-1786 | Paragraph | denotes | Vibrio fischeri, a bioluminescent marine bacterium, exists in an exclusive symbiotic relationship with the Hawaiian bobtail squid, Euprymna scolopes, whose light organ it colonizes. Previously, it has been shown that the lipopolysaccharide (LPS) or free lipid A of V. fischeri can trigger morphological changes in the juvenile squid's light organ that occur upon colonization. To investigate the structural features that might be responsible for this phenomenon, the lipid A from V. fischeri ES114 LPS was isolated and characterized by multistage mass spectrometry (MS(n)). A microheterogeneous mixture of mono- and diphosphorylated diglucosamine disaccharides was observed with variable states of acylation ranging from tetra- to octaacylated forms. All lipid A species, however, contained a set of conserved primary acyl chains consisting of an N-linked C14:0(3-OH) at the 2-position, an unusual N-linked C14:1(3-OH) at the 2'-position, and two O-linked C12:0(3-OH) fatty acids at the 3- and 3'-positions. The fatty acids found in secondary acylation were considerably more variable, with either a C12:0 or C16:1 at the 2-position, C14:0 or C14:0(3-OH) at the 2'-position, and C12:0 or no substituent at the 3'-position. Most surprising was the presence of an unusual set of modifications at the secondary acylation site of the 3-position consisting of phosphoglycerol (GroP), lysophosphatidic acid (GroP bearing C12:0, C16:0, or C16:1), or phosphatidic acid (GroP bearing either C16:0 + C12:0 or C16:0 + C16:1). Given their unusual nature, it is possible that these features of the V. fischeri lipid A may underlie the ability of E. scolopes to recognize its symbiotic partner. | ||
T3 | 17-32 | Microorganism | denotes | Vibrio fischeri | 668 | |
T4 | 106-121 | Microorganism | denotes | Vibrio fischeri | 668 | |
T5 | 125-139 | Phenotype | denotes | bioluminescent | OBT:000055 | |
T6 | 140-146 | Habitat | denotes | marine | OBT:000338 | |
T7 | 171-203 | Phenotype | denotes | exclusive symbiotic relationship | OBT:003183 | |
T8 | 213-235 | Habitat | denotes | Hawaiian bobtail squid | OBT:003123 | |
T9 | 237-254 | Habitat | denotes | Euprymna scolopes | OBT:003123 | |
T10 | 262-273 | Habitat | denotes | light organ | OBT:000708 | |
T11 | 371-382 | Microorganism | denotes | V. fischeri | 668 | |
T12 | 424-452 | Habitat | denotes | juvenile squid's light organ | OBT:000708 | |
T13 | 424-438 | Habitat | denotes | juvenile squid | OBT:003123|OBT:001849 | |
T14 | 586-603 | Microorganism | denotes | V. fischeri ES114 | 312309 | |
T15 | 682-766 | Habitat | denotes | microheterogeneous mixture of mono- and diphosphorylated diglucosamine disaccharides | OBT:000007 | |
T16 | 1691-1702 | Microorganism | denotes | V. fischeri | 668 | |
T17 | 1739-1750 | Habitat | denotes | E. scolopes | OBT:003123 | |
T18 | 1768-1777 | Phenotype | denotes | symbiotic | OBT:003183 |