diff --git a/_config.yml b/_config.yml
index 905ecf151..44c03b0f1 100644
--- a/_config.yml
+++ b/_config.yml
@@ -335,7 +335,7 @@ ontologies:
       Ontology.'}
   title: Biological Spatial Ontology
   tracker: https://github.com/obophenotype/biological-spatial-ontology/issues
-- build: {method: obo2owl, source_url: 'http://www.brenda-enzymes.info/ontology/tissue/tree/update/update_files/BrendaTissueOBO'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://www.brenda-enzymes.info/ontology/tissue/tree/update/update_files/BrendaTissueOBO'}
   contact: {email: a.chang@tu-bs.de, label: Antje Chang}
   description: A structured controlled vocabulary for the source of an enzyme comprising
     tissues, cell lines, cell types and cell cultures.
@@ -552,7 +552,7 @@ ontologies:
   title: Dictyostelium discoideum anatomy
   tracker: http://sourceforge.net/tracker/?group_id=76834&atid=974664
   twitter: dictybase
-- build: {method: obo2owl, source_url: 'https://raw.githubusercontent.com/dictyBase/migration-data/master/ontologies/dicty_phenotypes.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'https://raw.githubusercontent.com/dictyBase/migration-data/master/ontologies/dicty_phenotypes.obo'}
   contact: {email: r-chisholm@northwestern.edu, label: Rex Chisholm}
   description: A structured controlled vocabulary of phenotypes of the slime-mould
     <i>Dictyostelium discoideum</i>.
@@ -673,7 +673,7 @@ ontologies:
   taxon: {id: 'NCBITaxon:9606', label: Homo sapiens}
   title: Human developmental anatomy, abstract
   tracker: https://github.com/obophenotype/human-developmental-anatomy-ontology/issues
-- build: {method: obo2owl, notes: new url soon, source_url: 'ftp://ftp.hgu.mrc.ac.uk/pub/MouseAtlas/Anatomy/EMAP_combined.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, notes: new url soon, source_url: 'ftp://ftp.hgu.mrc.ac.uk/pub/MouseAtlas/Anatomy/EMAP_combined.obo'}
   contact: {email: Terry.Hayamizu@jax.org, label: Terry Hayamizu}
   description: A structured controlled vocabulary of stage-specific anatomical structures
     of the mouse (Mus).
@@ -795,7 +795,7 @@ ontologies:
   products:
   - {id: exo.owl, ontology_purl: 'http://purl.obolibrary.org/obo/exo.owl'}
   title: Exposure ontology
-- build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/microbial_gross_anatomy/fungi/fungal_anatomy.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/microbial_gross_anatomy/fungi/fungal_anatomy.obo'}
   contact: {email: maria@genome.stanford.edu, label: Maria Costanzo}
   description: A structured controlled vocabulary for the anatomy of fungi.
   domain: anatomy
@@ -925,7 +925,7 @@ ontologies:
   - {id: flu.owl, ontology_purl: 'http://purl.obolibrary.org/obo/flu.owl'}
   title: Influenza Ontology
   tracker: http://purl.obolibrary.org/obo/flu/tracker
-- build: {method: obo2owl, source_url: 'http://svn.code.sf.net/p/obo/svn/fma-conversion/trunk/fma2_obo.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://svn.code.sf.net/p/obo/svn/fma-conversion/trunk/fma2_obo.obo'}
   contact: {email: mejino@comcast.net, label: Onard Mejino}
   description: This is currently a slimmed down version of FMA
   domain: anatomy
@@ -1181,7 +1181,7 @@ ontologies:
   taxon: {id: 'NCBITaxon:40674', label: Mammalian}
   title: Mammalian Feeding Muscle Ontology
   tracker: https://github.com/RDruzinsky/feedontology/issues
-- build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/fish/medaka_ontology.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/fish/medaka_ontology.obo'}
   contact: {email: Thorsten.Henrich@embl-heidelberg.de, label: Thorsten Henrich}
   description: A structured controlled vocabulary of the anatomy and development of
     the Japanese medaka fish, <i>Oryzias latipes</i>.
@@ -1307,7 +1307,7 @@ ontologies:
   - {id: mmusdv.owl, ontology_purl: 'http://purl.obolibrary.org/obo/mmusdv.owl'}
   - {id: mmusdv.obo, ontology_purl: 'http://purl.obolibrary.org/obo/mmusdv.obo'}
   title: Mouse Developmental Stages
-- build: {method: obo2owl, source_url: 'https://raw.githubusercontent.com/MICommunity/psidev/master/psi/mod/data/PSI-MOD.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'https://raw.githubusercontent.com/MICommunity/psidev/master/psi/mod/data/PSI-MOD.obo'}
   contact: {email: hhe@ebi.ac.uk, label: Henning Hermjakob}
   description: PSI-MOD is an ontology consisting of terms that describe protein chemical
     modifications
@@ -1351,7 +1351,7 @@ ontologies:
   termgenie: http://mp.termgenie.org
   title: Mammalian phenotype
   tracker: https://github.com/obophenotype/mammalian-phenotype-ontology/issues
-- build: {method: obo2owl, source_url: 'https://raw.githubusercontent.com/PaulNSchofield/mpath/master/mpath.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'https://raw.githubusercontent.com/PaulNSchofield/mpath/master/mpath.obo'}
   contact: {email: pns12@cam.ac.uk, label: Paul Schofield}
   description: A structured controlled vocabulary of mutant and transgenic mouse pathology
     phenotypes
@@ -1711,7 +1711,7 @@ ontologies:
   - {id: 'http://www.ncbi.nlm.nih.gov/pubmed/24499703', title: The pathway ontology
       - updates and applications.}
   title: Pathway ontology
-- build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/physicochemical/rex.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/physicochemical/rex.obo'}
   contact: {email: hastings@ebi.ac.uk, label: Janna Hastings}
   description: An ontology of physico-chemical processes, i.e. physico-chemical changes
     occurring in course of time.
@@ -1859,7 +1859,7 @@ ontologies:
       Ontology terms and relationships.}
   title: Sequence types and features
   tracker: https://github.com/The-Sequence-Ontology/SO-Ontologies/issues
-- build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/spider/spider_comparative_biology.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/spider/spider_comparative_biology.obo'}
   contact: {email: ramirez@macn.gov.ar, label: Martin Ramirez}
   description: An ontology for spider comparative biology including anatomical parts
     (e.g. leg, claw), behavior (e.g. courtship, combing) and products (i.g. silk,
@@ -2260,7 +2260,7 @@ ontologies:
   layout: ontology_detail
   taxon: {id: 'NCBITaxon:8292', label: Amphibia}
   title: Amphibian taxonomy
-- build: {method: obo2owl, source_url: 'http://4dx.embl.de/4DXpress_4d/edocs/bilateria_mrca.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://4dx.embl.de/4DXpress_4d/edocs/bilateria_mrca.obo'}
   contact: {email: henrich@embl.de, label: Thorsten Heinrich}
   domain: anatomy
   homepage: http://4dx.embl.de/4DXpress
@@ -2309,7 +2309,7 @@ ontologies:
   is_obsolete: true
   layout: ontology_detail
   title: eVOC (Expressed Sequence Annotation for Humans)
-- build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/taxonomy/fly_taxonomy.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/taxonomy/fly_taxonomy.obo'}
   contact: {email: mmc46@gen.cam.ac.uk, label: Marta Costa}
   description: The taxonomy of the family <i>Drosophilidae</i> (largely after Baechli)
     and of other taxa referred to in FlyBase.
diff --git a/registry/ontologies.jsonld b/registry/ontologies.jsonld
index 2d77425a1..31ca93ab0 100644
--- a/registry/ontologies.jsonld
+++ b/registry/ontologies.jsonld
@@ -664,6 +664,7 @@
         },
         {
             "build": {
+                "insert_ontology_id": true,
                 "method": "obo2owl",
                 "source_url": "http://www.brenda-enzymes.info/ontology/tissue/tree/update/update_files/BrendaTissueOBO"
             },
@@ -1110,6 +1111,7 @@
         },
         {
             "build": {
+                "insert_ontology_id": true,
                 "method": "obo2owl",
                 "source_url": "https://raw.githubusercontent.com/dictyBase/migration-data/master/ontologies/dicty_phenotypes.obo"
             },
@@ -1361,6 +1363,7 @@
         },
         {
             "build": {
+                "insert_ontology_id": true,
                 "method": "obo2owl",
                 "notes": "new url soon",
                 "source_url": "ftp://ftp.hgu.mrc.ac.uk/pub/MouseAtlas/Anatomy/EMAP_combined.obo"
@@ -1609,6 +1612,7 @@
         },
         {
             "build": {
+                "insert_ontology_id": true,
                 "method": "obo2owl",
                 "source_url": "http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/microbial_gross_anatomy/fungi/fungal_anatomy.obo"
             },
@@ -1895,6 +1899,7 @@
         },
         {
             "build": {
+                "insert_ontology_id": true,
                 "method": "obo2owl",
                 "source_url": "http://svn.code.sf.net/p/obo/svn/fma-conversion/trunk/fma2_obo.obo"
             },
@@ -2431,6 +2436,7 @@
         },
         {
             "build": {
+                "insert_ontology_id": true,
                 "method": "obo2owl",
                 "source_url": "http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/fish/medaka_ontology.obo"
             },
@@ -2681,6 +2687,7 @@
         },
         {
             "build": {
+                "insert_ontology_id": true,
                 "method": "obo2owl",
                 "source_url": "https://raw.githubusercontent.com/MICommunity/psidev/master/psi/mod/data/PSI-MOD.obo"
             },
@@ -2781,6 +2788,7 @@
         },
         {
             "build": {
+                "insert_ontology_id": true,
                 "method": "obo2owl",
                 "source_url": "https://raw.githubusercontent.com/PaulNSchofield/mpath/master/mpath.obo"
             },
@@ -3504,6 +3512,7 @@
         },
         {
             "build": {
+                "insert_ontology_id": true,
                 "method": "obo2owl",
                 "source_url": "http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/physicochemical/rex.obo"
             },
@@ -3812,6 +3821,7 @@
         },
         {
             "build": {
+                "insert_ontology_id": true,
                 "method": "obo2owl",
                 "source_url": "http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/spider/spider_comparative_biology.obo"
             },
@@ -4659,6 +4669,7 @@
         },
         {
             "build": {
+                "insert_ontology_id": true,
                 "method": "obo2owl",
                 "source_url": "http://4dx.embl.de/4DXpress_4d/edocs/bilateria_mrca.obo"
             },
@@ -4757,6 +4768,7 @@
         },
         {
             "build": {
+                "insert_ontology_id": true,
                 "method": "obo2owl",
                 "source_url": "http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/taxonomy/fly_taxonomy.obo"
             },
diff --git a/registry/ontologies.ttl b/registry/ontologies.ttl
index 3d81431f0..7a9a56187 100644
--- a/registry/ontologies.ttl
+++ b/registry/ontologies.ttl
@@ -690,14 +690,14 @@
         <http://www.w3.org/ns/dcat#accessURL>
                 "http://purl.obolibrary.org/obo/ncbitaxon.owl" .
 
-<http://purl.obolibrary.org/obo/NCBITaxon_10114>
-        <http://www.w3.org/2000/01/rdf-schema#label>
-                "Rattus" .
-
 <http://purl.obolibrary.org/obo/gaz.owl>
         <http://www.w3.org/ns/dcat#accessURL>
                 "http://purl.obolibrary.org/obo/gaz.owl" .
 
+<http://purl.obolibrary.org/obo/NCBITaxon_10114>
+        <http://www.w3.org/2000/01/rdf-schema#label>
+                "Rattus" .
+
 <http://purl.obolibrary.org/obo/uberon/composite-metazoan.owl>
         a       <http://purl.obolibrary.org/obo/MergedOntology> ;
         <http://purl.obolibrary.org/obo/IAO_0000136>
@@ -1515,10 +1515,6 @@
         <http://xmlns.com/foaf/0.1/page>
                 <https://github.com/obophenotype/developmental-stage-ontologies> .
 
-<http://purl.obolibrary.org/obo/fbdv/fbbt-simple.obo>
-        <http://www.w3.org/ns/dcat#accessURL>
-                "http://purl.obolibrary.org/obo/fbdv/fbbt-simple.obo" .
-
 <http://purl.obolibrary.org/obo/mpath>
         <http://obofoundry.github.io/vocabulary/has_build_information>
                 [ <http://obofoundry.github.io/vocabulary/method>
@@ -1551,6 +1547,10 @@
         <http://xmlns.com/foaf/0.1/homepage>
                 <http://www.pathbase.net> .
 
+<http://purl.obolibrary.org/obo/fbdv/fbbt-simple.obo>
+        <http://www.w3.org/ns/dcat#accessURL>
+                "http://purl.obolibrary.org/obo/fbdv/fbbt-simple.obo" .
+
 <http://purl.obolibrary.org/obo/mop>
         <http://obofoundry.github.io/vocabulary/has_build_information>
                 [ <http://obofoundry.github.io/vocabulary/method>
@@ -2792,6 +2792,10 @@
         <http://www.w3.org/ns/dcat#accessURL>
                 "http://purl.obolibrary.org/obo/idomal.owl" .
 
+<http://www.dx.doi.org/10.1186/2041-1480-4-43>
+        <http://purl.org/dc/elements/1.1/title>
+                "The environment ontology: contextualising biological and biomedical entities" .
+
 <http://purl.obolibrary.org/obo/ncro>
         <http://obofoundry.github.io/vocabulary/has_build_information>
                 [ <http://obofoundry.github.io/vocabulary/method>
@@ -2824,10 +2828,6 @@
         <http://xmlns.com/foaf/0.1/homepage>
                 <http://omnisearch.soc.southalabama.edu/OntologyFile.aspx> .
 
-<http://www.dx.doi.org/10.1186/2041-1480-4-43>
-        <http://purl.org/dc/elements/1.1/title>
-                "The environment ontology: contextualising biological and biomedical entities" .
-
 <http://purl.obolibrary.org/obo/wbbt>
         <http://obofoundry.github.io/vocabulary/has_build_information>
                 [ <http://obofoundry.github.io/vocabulary/method>
@@ -3424,34 +3424,6 @@
         <http://www.w3.org/ns/dcat#accessURL>
                 "http://purl.obolibrary.org/obo/tgma.owl" .
 
-<http://purl.obolibrary.org/obo/xao>
-        <http://obofoundry.github.io/vocabulary/has_build_information>
-                [ <http://obofoundry.github.io/vocabulary/method>
-                          "obo2owl" ;
-                  <http://obofoundry.github.io/vocabulary/source_url>
-                          "https://raw.githubusercontent.com/xenopus-anatomy/xao/master/xenopus_anatomy.obo"
-                ] ;
-        <http://purl.obolibrary.org/obo/IAO_0000136>
-                <http://purl.obolibrary.org/obo/NCBITaxon_8353> ;
-        <http://purl.org/dc/elements/1.1/description>
-                "Anatomy and development of the African clawed frog (<i>Xenopus laevis</i>)." ;
-        <http://purl.org/dc/elements/1.1/title>
-                "Xenopus anatomy and development" ;
-        <http://purl.org/dc/terms/1.1/license>
-                <http://creativecommons.org/licenses/by/3.0/> ;
-        <http://purl.org/dc/terms/1.1/publication>
-                <http://www.ncbi.nlm.nih.gov/pubmed/24139024> , <http://www.ncbi.nlm.nih.gov/pubmed/18817563> ;
-        <http://purl.org/dc/terms/1.1/theme>
-                "anatomy" ;
-        <http://usefulinc.com/ns/doap#bug-database>
-                "https://github.com/xenopus-anatomy/xao/issues" ;
-        <http://www.w3.org/ns/dcat#accessURL>
-                "http://purl.obolibrary.org/obo/xao.owl" ;
-        <http://www.w3.org/ns/dcat#distribution>
-                <http://purl.obolibrary.org/obo/xao.owl> ;
-        <http://xmlns.com/foaf/0.1/homepage>
-                <http://www.xenbase.org/anatomy/xao.do?method=display> .
-
 <http://purl.obolibrary.org/obo/miro>
         <http://obofoundry.github.io/vocabulary/has_build_information>
                 [ <http://obofoundry.github.io/vocabulary/method>
@@ -3480,6 +3452,34 @@
         <http://xmlns.com/foaf/0.1/homepage>
                 <http://anobase.vectorbase.org> .
 
+<http://purl.obolibrary.org/obo/xao>
+        <http://obofoundry.github.io/vocabulary/has_build_information>
+                [ <http://obofoundry.github.io/vocabulary/method>
+                          "obo2owl" ;
+                  <http://obofoundry.github.io/vocabulary/source_url>
+                          "https://raw.githubusercontent.com/xenopus-anatomy/xao/master/xenopus_anatomy.obo"
+                ] ;
+        <http://purl.obolibrary.org/obo/IAO_0000136>
+                <http://purl.obolibrary.org/obo/NCBITaxon_8353> ;
+        <http://purl.org/dc/elements/1.1/description>
+                "Anatomy and development of the African clawed frog (<i>Xenopus laevis</i>)." ;
+        <http://purl.org/dc/elements/1.1/title>
+                "Xenopus anatomy and development" ;
+        <http://purl.org/dc/terms/1.1/license>
+                <http://creativecommons.org/licenses/by/3.0/> ;
+        <http://purl.org/dc/terms/1.1/publication>
+                <http://www.ncbi.nlm.nih.gov/pubmed/24139024> , <http://www.ncbi.nlm.nih.gov/pubmed/18817563> ;
+        <http://purl.org/dc/terms/1.1/theme>
+                "anatomy" ;
+        <http://usefulinc.com/ns/doap#bug-database>
+                "https://github.com/xenopus-anatomy/xao/issues" ;
+        <http://www.w3.org/ns/dcat#accessURL>
+                "http://purl.obolibrary.org/obo/xao.owl" ;
+        <http://www.w3.org/ns/dcat#distribution>
+                <http://purl.obolibrary.org/obo/xao.owl> ;
+        <http://xmlns.com/foaf/0.1/homepage>
+                <http://www.xenbase.org/anatomy/xao.do?method=display> .
+
 <http://purl.obolibrary.org/obo/ogg>
         <http://purl.org/dc/elements/1.1/description>
                 "A formal ontology of genes and genomes of biological organisms." ;
@@ -4229,38 +4229,6 @@
         <http://xmlns.com/foaf/0.1/homepage>
                 <http://diseaseontology.sourceforge.net/> .
 
-<http://bioportal.bioontology.org/ontologies/OBI?p=classes>
-        <http://www.w3.org/2000/01/rdf-schema#label>
-                "BioPortal" ;
-        <http://purl.org/dc/elements/1.1/title>
-                "BioPortal Browser" .
-
-<http://purl.obolibrary.org/obo/flopo>
-        <http://purl.obolibrary.org/obo/IAO_0000136>
-                <http://purl.obolibrary.org/obo/NCBITaxon_33090> ;
-        <http://purl.org/dc/elements/1.1/description>
-                "Traits and phenotypes of flowering plants occurring in digitized Floras" ;
-        <http://purl.org/dc/elements/1.1/title>
-                "Flora Phenotype Ontology" ;
-        <http://purl.org/dc/terms/1.1/license>
-                <https://creativecommons.org/about/cc0> ;
-        <http://purl.org/dc/terms/1.1/theme>
-                "phenotype" ;
-        <http://usefulinc.com/ns/doap#bug-database>
-                "https://github.com/flora-phenotype-ontology/flopoontology/issues" ;
-        <http://www.w3.org/ns/dcat#accessURL>
-                "http://purl.obolibrary.org/obo/flopo.owl" ;
-        <http://www.w3.org/ns/dcat#contactPoint>
-                [ <http://www.w3.org/2000/01/rdf-schema#label>
-                          "Robert Hoehndorf" ;
-                  <http://xmlns.com/foaf/0.1/mbox>
-                          "robert.hoehndorf@kaust.edu.sa"
-                ] ;
-        <http://www.w3.org/ns/dcat#distribution>
-                <http://purl.obolibrary.org/obo/flopo.owl> ;
-        <http://xmlns.com/foaf/0.1/homepage>
-                <https://github.com/flora-phenotype-ontology/flopoontology> .
-
 <http://purl.obolibrary.org/obo/ehdaa2>
         <http://obofoundry.github.io/vocabulary/depends_on>
                 <http://purl.obolibrary.org/obo/aeo> , <http://purl.obolibrary.org/obo/cl> , <http://purl.obolibrary.org/obo/caro> ;
@@ -4295,6 +4263,38 @@
         <http://xmlns.com/foaf/0.1/homepage>
                 <http://genex.hgu.mrc.ac.uk/> .
 
+<http://bioportal.bioontology.org/ontologies/OBI?p=classes>
+        <http://www.w3.org/2000/01/rdf-schema#label>
+                "BioPortal" ;
+        <http://purl.org/dc/elements/1.1/title>
+                "BioPortal Browser" .
+
+<http://purl.obolibrary.org/obo/flopo>
+        <http://purl.obolibrary.org/obo/IAO_0000136>
+                <http://purl.obolibrary.org/obo/NCBITaxon_33090> ;
+        <http://purl.org/dc/elements/1.1/description>
+                "Traits and phenotypes of flowering plants occurring in digitized Floras" ;
+        <http://purl.org/dc/elements/1.1/title>
+                "Flora Phenotype Ontology" ;
+        <http://purl.org/dc/terms/1.1/license>
+                <https://creativecommons.org/about/cc0> ;
+        <http://purl.org/dc/terms/1.1/theme>
+                "phenotype" ;
+        <http://usefulinc.com/ns/doap#bug-database>
+                "https://github.com/flora-phenotype-ontology/flopoontology/issues" ;
+        <http://www.w3.org/ns/dcat#accessURL>
+                "http://purl.obolibrary.org/obo/flopo.owl" ;
+        <http://www.w3.org/ns/dcat#contactPoint>
+                [ <http://www.w3.org/2000/01/rdf-schema#label>
+                          "Robert Hoehndorf" ;
+                  <http://xmlns.com/foaf/0.1/mbox>
+                          "robert.hoehndorf@kaust.edu.sa"
+                ] ;
+        <http://www.w3.org/ns/dcat#distribution>
+                <http://purl.obolibrary.org/obo/flopo.owl> ;
+        <http://xmlns.com/foaf/0.1/homepage>
+                <https://github.com/flora-phenotype-ontology/flopoontology> .
+
 <http://purl.obolibrary.org/obo/omit.owl>
         <http://www.w3.org/ns/dcat#accessURL>
                 "http://purl.obolibrary.org/obo/omit.owl" .
@@ -4507,6 +4507,10 @@
         <http://purl.org/dc/elements/1.1/title>
                 "The Drosophila anatomy ontology. [Journal of Biomedical Semantics" .
 
+<http://www.ncbi.nlm.nih.gov/pubmed/24267899>
+        <http://purl.org/dc/elements/1.1/title>
+                "Rat Strain Ontology: structured controlled vocabulary designed to facilitate access to strain data at RGD." .
+
 <http://purl.obolibrary.org/obo/iao/d-acts.owl>
         <http://purl.org/dc/elements/1.1/description>
                 "An ontology based on a theory of document acts describing what people can do with documents" ;
@@ -4521,10 +4525,6 @@
                           "mbrochhausen@gmail.com"
                 ] .
 
-<http://www.ncbi.nlm.nih.gov/pubmed/24267899>
-        <http://purl.org/dc/elements/1.1/title>
-                "Rat Strain Ontology: structured controlled vocabulary designed to facilitate access to strain data at RGD." .
-
 <http://purl.obolibrary.org/obo/go>
         <http://www.w3.org/2000/01/rdf-schema#label>
                 "GO" ;
@@ -5183,15 +5183,6 @@
         <http://xmlns.com/foaf/0.1/page>
                 <http://diseaseontology.sourceforge.net/> .
 
-<http://purl.obolibrary.org/obo/uberon.owl>
-        a       <http://www.w3.org/2002/07/owl#Ontology> ;
-        <http://purl.org/dc/elements/1.1/description>
-                "core ontology" ;
-        <http://purl.org/dc/elements/1.1/title>
-                "Uberon" ;
-        <http://www.w3.org/ns/dcat#accessURL>
-                "http://purl.obolibrary.org/obo/uberon.owl" .
-
 <http://purl.obolibrary.org/obo/taxrank>
         <http://obofoundry.github.io/vocabulary/has_build_information>
                 [ <http://obofoundry.github.io/vocabulary/method>
@@ -5218,6 +5209,15 @@
         <http://xmlns.com/foaf/0.1/homepage>
                 <https://www.phenoscape.org/wiki/Taxonomic_Rank_Vocabulary> .
 
+<http://purl.obolibrary.org/obo/uberon.owl>
+        a       <http://www.w3.org/2002/07/owl#Ontology> ;
+        <http://purl.org/dc/elements/1.1/description>
+                "core ontology" ;
+        <http://purl.org/dc/elements/1.1/title>
+                "Uberon" ;
+        <http://www.w3.org/ns/dcat#accessURL>
+                "http://purl.obolibrary.org/obo/uberon.owl" .
+
 <http://purl.obolibrary.org/obo/NCBITaxon_6605>
         <http://www.w3.org/2000/01/rdf-schema#label>
                 "Cephalopod" .
diff --git a/registry/ontologies.yml b/registry/ontologies.yml
index 402bdf2bd..1e5c4f24d 100644
--- a/registry/ontologies.yml
+++ b/registry/ontologies.yml
@@ -327,7 +327,7 @@ ontologies:
       Ontology.'}
   title: Biological Spatial Ontology
   tracker: https://github.com/obophenotype/biological-spatial-ontology/issues
-- build: {method: obo2owl, source_url: 'http://www.brenda-enzymes.info/ontology/tissue/tree/update/update_files/BrendaTissueOBO'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://www.brenda-enzymes.info/ontology/tissue/tree/update/update_files/BrendaTissueOBO'}
   contact: {email: a.chang@tu-bs.de, label: Antje Chang}
   description: A structured controlled vocabulary for the source of an enzyme comprising
     tissues, cell lines, cell types and cell cultures.
@@ -544,7 +544,7 @@ ontologies:
   title: Dictyostelium discoideum anatomy
   tracker: http://sourceforge.net/tracker/?group_id=76834&atid=974664
   twitter: dictybase
-- build: {method: obo2owl, source_url: 'https://raw.githubusercontent.com/dictyBase/migration-data/master/ontologies/dicty_phenotypes.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'https://raw.githubusercontent.com/dictyBase/migration-data/master/ontologies/dicty_phenotypes.obo'}
   contact: {email: r-chisholm@northwestern.edu, label: Rex Chisholm}
   description: A structured controlled vocabulary of phenotypes of the slime-mould
     <i>Dictyostelium discoideum</i>.
@@ -665,7 +665,7 @@ ontologies:
   taxon: {id: 'NCBITaxon:9606', label: Homo sapiens}
   title: Human developmental anatomy, abstract
   tracker: https://github.com/obophenotype/human-developmental-anatomy-ontology/issues
-- build: {method: obo2owl, notes: new url soon, source_url: 'ftp://ftp.hgu.mrc.ac.uk/pub/MouseAtlas/Anatomy/EMAP_combined.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, notes: new url soon, source_url: 'ftp://ftp.hgu.mrc.ac.uk/pub/MouseAtlas/Anatomy/EMAP_combined.obo'}
   contact: {email: Terry.Hayamizu@jax.org, label: Terry Hayamizu}
   description: A structured controlled vocabulary of stage-specific anatomical structures
     of the mouse (Mus).
@@ -787,7 +787,7 @@ ontologies:
   products:
   - {id: exo.owl, ontology_purl: 'http://purl.obolibrary.org/obo/exo.owl'}
   title: Exposure ontology
-- build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/microbial_gross_anatomy/fungi/fungal_anatomy.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/microbial_gross_anatomy/fungi/fungal_anatomy.obo'}
   contact: {email: maria@genome.stanford.edu, label: Maria Costanzo}
   description: A structured controlled vocabulary for the anatomy of fungi.
   domain: anatomy
@@ -917,7 +917,7 @@ ontologies:
   - {id: flu.owl, ontology_purl: 'http://purl.obolibrary.org/obo/flu.owl'}
   title: Influenza Ontology
   tracker: http://purl.obolibrary.org/obo/flu/tracker
-- build: {method: obo2owl, source_url: 'http://svn.code.sf.net/p/obo/svn/fma-conversion/trunk/fma2_obo.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://svn.code.sf.net/p/obo/svn/fma-conversion/trunk/fma2_obo.obo'}
   contact: {email: mejino@comcast.net, label: Onard Mejino}
   description: This is currently a slimmed down version of FMA
   domain: anatomy
@@ -1173,7 +1173,7 @@ ontologies:
   taxon: {id: 'NCBITaxon:40674', label: Mammalian}
   title: Mammalian Feeding Muscle Ontology
   tracker: https://github.com/RDruzinsky/feedontology/issues
-- build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/fish/medaka_ontology.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/fish/medaka_ontology.obo'}
   contact: {email: Thorsten.Henrich@embl-heidelberg.de, label: Thorsten Henrich}
   description: A structured controlled vocabulary of the anatomy and development of
     the Japanese medaka fish, <i>Oryzias latipes</i>.
@@ -1299,7 +1299,7 @@ ontologies:
   - {id: mmusdv.owl, ontology_purl: 'http://purl.obolibrary.org/obo/mmusdv.owl'}
   - {id: mmusdv.obo, ontology_purl: 'http://purl.obolibrary.org/obo/mmusdv.obo'}
   title: Mouse Developmental Stages
-- build: {method: obo2owl, source_url: 'https://raw.githubusercontent.com/MICommunity/psidev/master/psi/mod/data/PSI-MOD.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'https://raw.githubusercontent.com/MICommunity/psidev/master/psi/mod/data/PSI-MOD.obo'}
   contact: {email: hhe@ebi.ac.uk, label: Henning Hermjakob}
   description: PSI-MOD is an ontology consisting of terms that describe protein chemical
     modifications
@@ -1343,7 +1343,7 @@ ontologies:
   termgenie: http://mp.termgenie.org
   title: Mammalian phenotype
   tracker: https://github.com/obophenotype/mammalian-phenotype-ontology/issues
-- build: {method: obo2owl, source_url: 'https://raw.githubusercontent.com/PaulNSchofield/mpath/master/mpath.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'https://raw.githubusercontent.com/PaulNSchofield/mpath/master/mpath.obo'}
   contact: {email: pns12@cam.ac.uk, label: Paul Schofield}
   description: A structured controlled vocabulary of mutant and transgenic mouse pathology
     phenotypes
@@ -1703,7 +1703,7 @@ ontologies:
   - {id: 'http://www.ncbi.nlm.nih.gov/pubmed/24499703', title: The pathway ontology
       - updates and applications.}
   title: Pathway ontology
-- build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/physicochemical/rex.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/physicochemical/rex.obo'}
   contact: {email: hastings@ebi.ac.uk, label: Janna Hastings}
   description: An ontology of physico-chemical processes, i.e. physico-chemical changes
     occurring in course of time.
@@ -1851,7 +1851,7 @@ ontologies:
       Ontology terms and relationships.}
   title: Sequence types and features
   tracker: https://github.com/The-Sequence-Ontology/SO-Ontologies/issues
-- build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/spider/spider_comparative_biology.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/spider/spider_comparative_biology.obo'}
   contact: {email: ramirez@macn.gov.ar, label: Martin Ramirez}
   description: An ontology for spider comparative biology including anatomical parts
     (e.g. leg, claw), behavior (e.g. courtship, combing) and products (i.g. silk,
@@ -2252,7 +2252,7 @@ ontologies:
   layout: ontology_detail
   taxon: {id: 'NCBITaxon:8292', label: Amphibia}
   title: Amphibian taxonomy
-- build: {method: obo2owl, source_url: 'http://4dx.embl.de/4DXpress_4d/edocs/bilateria_mrca.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://4dx.embl.de/4DXpress_4d/edocs/bilateria_mrca.obo'}
   contact: {email: henrich@embl.de, label: Thorsten Heinrich}
   domain: anatomy
   homepage: http://4dx.embl.de/4DXpress
@@ -2301,7 +2301,7 @@ ontologies:
   is_obsolete: true
   layout: ontology_detail
   title: eVOC (Expressed Sequence Annotation for Humans)
-- build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/taxonomy/fly_taxonomy.obo'}
+- build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/taxonomy/fly_taxonomy.obo'}
   contact: {email: mmc46@gen.cam.ac.uk, label: Marta Costa}
   description: The taxonomy of the family <i>Drosophilidae</i> (largely after Baechli)
     and of other taxa referred to in FlyBase.