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Support 6 curators with 20% overlap
- Update justfile NUM_CURATORS from 3 to 6 - Update justfile OVERLAP_PCT from 10 to 20 - Update splitter.py to accept num_curators and overlap_pct as CLI args - Generate assignments for 3 interns + Marcin + Sujay + Montana - 20% overlap for better inter-curator agreement assessment Assignment distribution: - curator1.tsv: 28 classes - curator2.tsv: 32 classes - curator3.tsv: 32 classes - curator4.tsv: 32 classes - curator5.tsv: 32 classes - curator6.tsv: 31 classes Total: 147 classes with configured overlap 🤖 Generated with [Claude Code](https://claude.com/claude-code) Co-Authored-By: Claude <noreply@anthropic.com>
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‎assignments/curator1.tsv‎

Lines changed: 24 additions & 49 deletions
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ID label TYPE parent class description definition source comment biolink equivalent confirmed exact synonym literature mining synonyms madin synonym or field synonym source bacdive keyword synonym bactotraits synonym
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ID LABEL TYPE SC % A IAO:0000115 >A IAO:0000119 A rdfs:comment AI skos:closeMatch A oboInOwl:hasExactSynonym SPLIT=| A oboInOwl:hasRelatedSynonym SPLIT=| A oboInOwl:hasRelatedSynonym SPLIT=| >AI IAO:0000119 A oboInOwl:hasRelatedSynonym SPLIT=| A oboInOwl:hasRelatedSynonym SPLIT=|
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METPO:1000059 phenotype owl:Class quality A (combination of) quality(ies) of an organism determined by the interaction of its genetic make-up and environment that differentiates specific instances of a species from other instances of the same species. OGMS:0000023 https://biolink.github.io/biolink-model/PhenotypicQuality
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METPO:1000674 filament shaped owl:Class cell shape filament https://ordar.otelo.univ-lorraine.fr/files/ORDAR-53/BactoTraits_databaseV2_Jun2022.csv filament-shaped s_filament
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METPO:1000127 GC content owl:Class quality The percentage of guanine and cytosine nucleotides in DNA
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METPO:1000656 photoautotrophic owl:Class trophic type photoautotrophy|anoxygenic_photoautotrophy_hydrogen_oxidation|anoxygenic_photoautotrophy_sulfur_oxidation|anoxygenic_photoautotrophy|anoxygenic_photoautotrophy_iron_oxidation photoautotroph
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METPO:1000693 spirochete shaped owl:Class cell shape spirochete
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METPO:1000803 Oxidative phosphorylation owl:Class metabolism
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METPO:1000652 mixotrophic owl:Class trophic type mixotroph
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METPO:1000639 chemolithotrophic owl:Class trophic type chemolithotroph
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METPO:1000800 respiration owl:Class metabolism An organism's observable and characteristic method of performing cellular respiration, distinguished primarily by the specific terminal electron acceptor its metabolic pathways utilize for the purpose of producing cellular energy. pathways
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METPO:1000671 diplococcus shaped owl:Class cell shape diplococcus-shaped
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METPO:1000659 photoorganoheterotrophic owl:Class trophic type photoorganoheterotroph
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METPO:1000236 pH tolerance owl:Class phenotype The ability of an organism to survive exposure to pH values outside its optimal growth range
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METPO:1000673 ellipsoidal owl:Class cell shape ellipsoidal
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METPO:1000622 halotolerant owl:Class halophily preference halotolerant halotolerant
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METPO:1000658 photolithotrophic owl:Class trophic type photolithotroph
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METPO:1003003 acidophilic owl:Class pH growth preference acidophile|acidophil
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METPO:1000684 spiral shaped owl:Class cell shape spiral https://ordar.otelo.univ-lorraine.fr/files/ORDAR-53/BactoTraits_databaseV2_Jun2022.csv spiral-shaped s_curved_spiral
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METPO:1000692 spindle shaped owl:Class cell shape spindle
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METPO:1000655 organotrophic owl:Class trophic type organotroph
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METPO:1000706 gliding owl:Class motile gliding
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METPO:1000871 spore forming owl:Class sporulation yes yes
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METPO:1000657 photoheterotrophic owl:Class trophic type photoheterotrophy photoheterotroph
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METPO:1000689 disc shaped owl:Class cell shape disc
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METPO:1000695 tailed shaped owl:Class cell shape tailed
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METPO:1003011 osmophilic owl:Class trophic type high solute
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METPO:1003001 neutrophilic owl:Class pH growth preference neutrophile|neutralophile|neutralophilic
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METPO:1000697 gram stain owl:Class phenotype gram_stain Morphology.cell morphology.gram stain|General.keywords
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METPO:1000702 motile owl:Class motility yes https://ordar.otelo.univ-lorraine.fr/files/ORDAR-53/BactoTraits_databaseV2_Jun2022.csv yes motile
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METPO:1000690 fusiform shaped owl:Class cell shape fusiform
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METPO:1001105 biosafety level 4 owl:Class biosafety level
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METPO:1000685 star shaped owl:Class cell shape star https://ordar.otelo.univ-lorraine.fr/files/ORDAR-53/BactoTraits_databaseV2_Jun2022.csv star-shaped s_star_dumbbell_pleomorphic
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METPO:1003009 alkalotolerant owl:Class pH growth preference alkalitolerant
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METPO:1000804 Substrate-level phosphorylation owl:Class metabolism
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METPO:1000696 triangular shaped owl:Class cell shape triangular
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METPO:1000675 flask shaped owl:Class cell shape flask flask-shaped
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METPO:1000652 mixotrophic owl:Class trophic type mixotroph
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METPO:1000633 carboxydotrophic owl:Class trophic type
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METPO:1002035 Ammonia oxidation owl:Class Nitrogen compound respiration
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METPO:1000601 oxygen preference owl:Class phenotype metabolism Physiology and metabolism.oxygen tolerance.oxygen tolerance|General.keywords
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METPO:1000636 chemoheterotrophic owl:Class trophic type aerobic_chemo_heterotrophy chemoheterotroph
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METPO:1000628 extremely halophilic owl:Class halophily preference extreme-halophilic extremely halophilic
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METPO:1000329 temperature optimum (metabolic activity) owl:Class biological process The specific temperature at which a microorganism exhibits maximum metabolic activity and growth rate within its viable range.
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METPO:1000333 NaCl optimum owl:Class phenotype The specific concentration of sodium chloride at which a microorganism exhibits maximum growth rate and metabolic efficiency.
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METPO:1000644 heterotrophic owl:Class trophic type heterotrophic|aerobic_heterotrophy heterotroph
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METPO:1000660 phototrophic owl:Class trophic type aerobic_anoxygenic_phototrophy phototroph
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METPO:1000845 Acetogenesis owl:Class metabolism Acetate fermentation acetogenesis
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METPO:1000802 Anaerobic respiration owl:Class respiration Anoxic respiration|Dissimilatory respiration (non-O₂)
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METPO:1000306 temperature range (growth tolerance) owl:Class phenotype The span of temperatures within which an organism can grow
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METPO:1000687 branched shaped owl:Class cell shape branced
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METPO:1000621 haloalkaliphilic owl:Class halophily preference haloalkaliphilic
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METPO:1001003 temperature range observation owl:Class observation An observation specializing temperature observation for growth temperature range data.
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METPO:1000870 sporulation owl:Class phenotype sporulation Physiology and metabolism.spore formation.spore formation|General.keywords
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METPO:1002007 Sulfur disproportionation owl:Class Sulfur and sulfoxide compound respiration
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METPO:1000640 chemoorganoheterotrophic owl:Class trophic type chemoorganoheterotroph
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METPO:1000680 ring shaped owl:Class cell shape ring ring-shaped
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METPO:1000635 chemoautotrophic owl:Class trophic type chemoautotroph
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METPO:1003000 pH growth preference owl:Class phenotype
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METPO:1000233 pH optimum (growth range) owl:Class phenotype The specific pH at which an organism exhibits maximum growth rate
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METPO:1000669 crescent shaped owl:Class cell shape crescent-shaped
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METPO:1001005 culture temperature observation owl:Class observation An observation specializing temperature observation for culture temperature data (e.g., reported culture conditions).
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METPO:1000664 organoheterotrophic owl:Class trophic type organoheterotroph
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METPO:1002002 Mn(IV)-dependent methane oxidation owl:Class Metal and metalloid respiration
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METPO:1003013 radiophilic owl:Class trophic type high radiation
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METPO:1000700 gram variable owl:Class gram stain variable
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METPO:1000332 pH range (cellular homeostasis) owl:Class phenotype The span of hydrogen ion concentrations within which a microorganism can maintain cellular homeostasis and sustain growth.
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METPO:1003002 alkaphilic owl:Class pH growth preference alkaliphilic|alkaliphile|alkalophilic|alkalophile
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METPO:1000666 cell shape owl:Class phenotype cell_shape Morphology.cell morphology.cell shape|General.keywords
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METPO:1000705 axially filamented owl:Class motile axial filament
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METPO:1000804 Substrate-level phosphorylation owl:Class metabolism
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METPO:1000638 chemolithoheterotrophic owl:Class trophic type chemolithoheterotroph
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METPO:1000304 temperature optimum (growth range) owl:Class phenotype The specific temperature at which an organism exhibits maximum growth rate
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METPO:1000648 lithoheterotrophic owl:Class trophic type lithoheterotroph
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METPO:1000525 microbe owl:Class material entity An organism or virus or viron that is too small to be viewed by the unaided eye. OHMI:0000460 METPO is primarily concerned with unicellular, prokaryotic life forms, i.e. bacteria and archea, including the cases of giant bacteria like Thiomargarita https://biolink.github.io/biolink-model/OrganismTaxon
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METPO:1000872 non-spore forming owl:Class sporulation no no
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METPO:1000060 metabolism owl:Class biological process
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METPO:1000186 material entity owl:Class An object or portion of a substance or mixture of substances that consists of matter
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METPO:1000624 non halophilic owl:Class halophily preference non-halophilic non-halophilic
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METPO:1002038 Methane oxidation owl:Class metabolism

‎assignments/curator2.tsv‎

Lines changed: 28 additions & 53 deletions
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ID label TYPE parent class description definition source comment biolink equivalent confirmed exact synonym literature mining synonyms madin synonym or field synonym source bacdive keyword synonym bactotraits synonym
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ID LABEL TYPE SC % A IAO:0000115 >A IAO:0000119 A rdfs:comment AI skos:closeMatch A oboInOwl:hasExactSynonym SPLIT=| A oboInOwl:hasRelatedSynonym SPLIT=| A oboInOwl:hasRelatedSynonym SPLIT=| >AI IAO:0000119 A oboInOwl:hasRelatedSynonym SPLIT=| A oboInOwl:hasRelatedSynonym SPLIT=|
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METPO:1000059 phenotype owl:Class quality A (combination of) quality(ies) of an organism determined by the interaction of its genetic make-up and environment that differentiates specific instances of a species from other instances of the same species. OGMS:0000023 https://biolink.github.io/biolink-model/PhenotypicQuality
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METPO:1000804 Substrate-level phosphorylation owl:Class metabolism
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METPO:1000638 chemolithoheterotrophic owl:Class trophic type chemolithoheterotroph
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METPO:1000304 temperature optimum (growth range) owl:Class phenotype The specific temperature at which an organism exhibits maximum growth rate
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METPO:1000648 lithoheterotrophic owl:Class trophic type lithoheterotroph
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METPO:1000525 microbe owl:Class material entity An organism or virus or viron that is too small to be viewed by the unaided eye. OHMI:0000460 METPO is primarily concerned with unicellular, prokaryotic life forms, i.e. bacteria and archea, including the cases of giant bacteria like Thiomargarita https://biolink.github.io/biolink-model/OrganismTaxon
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METPO:1000872 non-spore forming owl:Class sporulation no no
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METPO:1000060 metabolism owl:Class biological process
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METPO:1000186 material entity owl:Class An object or portion of a substance or mixture of substances that consists of matter
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METPO:1002001 Fe(III)-dependent methane oxidation owl:Class Metal and metalloid respiration
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METPO:1000687 branched shaped owl:Class cell shape branced
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METPO:1000649 lithotrophic owl:Class trophic type lithotroph
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METPO:1003014 barophilic owl:Class trophic type high pressure
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METPO:1001102 biosafety level 1 owl:Class biosafety level
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METPO:1000670 curved shaped owl:Class cell shape https://ordar.otelo.univ-lorraine.fr/files/ORDAR-53/BactoTraits_databaseV2_Jun2022.csv curved-shaped s_curved_spiral
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METPO:1000679 pleomorphic shaped owl:Class cell shape pleomorphic https://ordar.otelo.univ-lorraine.fr/files/ORDAR-53/BactoTraits_databaseV2_Jun2022.csv pleomorphic-shaped s_star_dumbbell_pleomorphic
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METPO:1001004 temperature delta observation owl:Class observation An observation specializing temperature observation for tolerance breadth (delta) data.
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METPO:1003012 saccharophilic owl:Class trophic type high sugar
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METPO:1001002 growth temperature observation owl:Class observation An observation specializing temperature observation for general growth temperature data.
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METPO:1002006 Syntrophy owl:Class metabolism
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METPO:1002008 Nitrogen fixation owl:Class Nitrogen compound respiration nitrogen_fixation diazotroph
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METPO:1000624 non halophilic owl:Class halophily preference non-halophilic non-halophilic
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METPO:1000620 halophilic owl:Class halophily preference halophilic halophilic
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METPO:1003009 alkalotolerant owl:Class pH growth preference alkalitolerant
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METPO:1000235 pH range (growth tolerance) owl:Class phenotype The span of pH values within which an organism can grow
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METPO:1000637 chemolithoautotrophic owl:Class trophic type chemolithoautotroph
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METPO:1000667 bacillus shaped owl:Class cell shape bacillus
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METPO:1000696 triangular shaped owl:Class cell shape triangular
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METPO:1001101 biosafety level owl:Class quality
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METPO:1000720 facultative psychrophilic owl:Class temperature preference facultative psychrophile facultative psychrophilic
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METPO:1000330 temperature range (metabolic viability) owl:Class biological process The span of temperatures within which a microorganism can maintain metabolic functions and population viability.
4+
METPO:1000870 sporulation owl:Class phenotype sporulation Physiology and metabolism.spore formation.spore formation|General.keywords
5+
METPO:1002007 Sulfur disproportionation owl:Class Sulfur and sulfoxide compound respiration
346
METPO:1000640 chemoorganoheterotrophic owl:Class trophic type chemoorganoheterotroph
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METPO:1000680 ring shaped owl:Class cell shape ring ring-shaped
358
METPO:1000635 chemoautotrophic owl:Class trophic type chemoautotroph
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METPO:1002007 Sulfur disproportionation owl:Class Sulfur and sulfoxide compound respiration
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METPO:1000627 euryhaline owl:Class halophily preference euryhaline
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METPO:1000682 spore shaped owl:Class cell shape spore-shaped
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METPO:1000650 methanotrophic owl:Class trophic type methanotroph
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METPO:1000690 fusiform shaped owl:Class cell shape fusiform
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METPO:1000701 motility owl:Class phenotype motility Morphology.cell morphology.motility|General.keywords
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METPO:1001105 biosafety level 4 owl:Class biosafety level
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METPO:1003004 obligately alkaphilic owl:Class pH growth preference obligate alkaliphile|obligately alkaliphilic|obligate alkaphilic
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METPO:1000678 oval shaped owl:Class cell shape oval-shaped
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METPO:1000634 chemoautolithotrophic owl:Class trophic type chemoautolithotroph
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METPO:1002035 Ammonia oxidation owl:Class Nitrogen compound respiration
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METPO:1000641 chemotrophic owl:Class trophic type chemotroph
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METPO:1000651 methylotrophic owl:Class trophic type methylotrophy methylotroph
49-
METPO:1002036 Nitrite oxidation owl:Class Nitrogen compound respiration
50-
METPO:1002000 Sulfate-dependent methane oxidation owl:Class respiration
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METPO:1000601 oxygen preference owl:Class phenotype metabolism Physiology and metabolism.oxygen tolerance.oxygen tolerance|General.keywords
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METPO:1000623 moderately halophilic owl:Class halophily preference moderate-halophilic moderately halophilic
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METPO:1000646 hydrogenotrophic owl:Class trophic type
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METPO:1000642 copiotrophic owl:Class nutrient adaptation copiotroph
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METPO:1003000 pH growth preference owl:Class phenotype
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METPO:1000624 non halophilic owl:Class halophily preference non-halophilic non-halophilic
11+
METPO:1002038 Methane oxidation owl:Class metabolism
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METPO:1000655 organotrophic owl:Class trophic type organotroph
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METPO:1003005 facultatively alkaphilic owl:Class pH growth preference facultative alkaliphile|facultatively alkaliphilic|facultative alkaphilic
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METPO:1000871 spore forming owl:Class sporulation yes yes
15+
METPO:1000647 lithoautotrophic owl:Class trophic type lithoautotroph
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METPO:1000706 gliding owl:Class motile gliding
17+
METPO:1000330 temperature range (metabolic viability) owl:Class biological process The span of temperatures within which a microorganism can maintain metabolic functions and population viability.
5518
METPO:1000704 flagellated owl:Class motile flagella
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METPO:1000805 Electron transfer owl:Class metabolism
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METPO:1001002 growth temperature observation owl:Class observation An observation specializing temperature observation for general growth temperature data.
20+
METPO:1000637 chemolithoautotrophic owl:Class trophic type chemolithoautotroph
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METPO:1000672 dumbbell shaped owl:Class cell shape https://ordar.otelo.univ-lorraine.fr/files/ORDAR-53/BactoTraits_databaseV2_Jun2022.csv dumbbell-shaped s_star_dumbbell_pleomorphic
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METPO:1000622 halotolerant owl:Class halophily preference halotolerant halotolerant
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METPO:1000629 halophily preference owl:Class phenotype range_salinity Physiology and metabolism.halophily.halophily level|General.keywords
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METPO:1000641 chemotrophic owl:Class trophic type chemotroph
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METPO:1003014 barophilic owl:Class trophic type high pressure
5726
METPO:1000688 coccobacillus shaped owl:Class cell shape coccobacillus
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METPO:1000689 disc shaped owl:Class cell shape disc
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METPO:1000699 gram negative owl:Class gram stain negative https://ordar.otelo.univ-lorraine.fr/files/ORDAR-53/BactoTraits_databaseV2_Jun2022.csv negative G_negative
60-
METPO:1001103 biosafety level 2 owl:Class biosafety level
27+
METPO:1003003 acidophilic owl:Class pH growth preference acidophile|acidophil
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METPO:1003010 xerophilic owl:Class trophic type low H2O availability
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METPO:1000625 slightly halophilic owl:Class halophily preference slightly halophilic
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METPO:1000627 euryhaline owl:Class halophily preference euryhaline
31+
METPO:1002000 Sulfate-dependent methane oxidation owl:Class respiration
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METPO:1000235 pH range (growth tolerance) owl:Class phenotype The span of pH values within which an organism can grow
33+
METPO:1000802 Anaerobic respiration owl:Class respiration Anoxic respiration|Dissimilatory respiration (non-O₂)
34+
METPO:1000659 photoorganoheterotrophic owl:Class trophic type photoorganoheterotroph
35+
METPO:1000331 pH optimum (metabolic efficiency) owl:Class phenotype The specific hydrogen ion concentration at which a microorganism achieves its maximum growth rate and metabolic efficiency.

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