From 251df23eda31166a5c412a2a1fee1ed6ea44fb1e Mon Sep 17 00:00:00 2001 From: Jennifer Chang Date: Wed, 16 Oct 2024 13:13:09 -0700 Subject: [PATCH 1/2] Add is_lab_host column to metadata Adding this column allows us to filter out lab hosts from the phylogenetic workflow. --- ingest/defaults/config.yaml | 3 +++ 1 file changed, 3 insertions(+) diff --git a/ingest/defaults/config.yaml b/ingest/defaults/config.yaml index 7b4f9fa..45a908e 100644 --- a/ingest/defaults/config.yaml +++ b/ingest/defaults/config.yaml @@ -22,6 +22,7 @@ ncbi_datasets_fields: - update-date - length - host-name + - is-lab-host - isolate-lineage-source - bioprojects - biosample-acc @@ -52,6 +53,7 @@ curate: update-date: date_updated length: length host-name: host + is-lab-host: is_lab_host isolate-lineage-source: sample_type biosample-acc: biosample_accessions sra-accs: sra_accessions @@ -110,6 +112,7 @@ curate: 'location', 'state', 'host', + 'is_lab_host', #'date_submitted', #'sra_accession', #'abbr_authors', From 00136027d5fc02c6b2eb211f9243215ca55f4f34 Mon Sep 17 00:00:00 2001 From: Jennifer Chang Date: Wed, 16 Oct 2024 13:24:17 -0700 Subject: [PATCH 2/2] Add is_lab_host column to example data --- phylogenetic/example_data/metadata.tsv | 140 ++++++++++++------------- 1 file changed, 70 insertions(+), 70 deletions(-) diff --git a/phylogenetic/example_data/metadata.tsv b/phylogenetic/example_data/metadata.tsv index 465e89d..e67893b 100644 --- a/phylogenetic/example_data/metadata.tsv +++ b/phylogenetic/example_data/metadata.tsv @@ -1,70 +1,70 @@ -accession date region country division location state host authors latitude longitude url length clade_membership -JF957161 2006-XX-XX North America USA Idaho ID Anez et al. https://www.ncbi.nlm.nih.gov/nuccore/JF957161 11016 SW03 -JQ700438 2011-XX-XX North America USA Homo sapiens Anez et al. https://www.ncbi.nlm.nih.gov/nuccore/JQ700438 11016 SW03 -JX015523 2010-08-31 North America USA Texas El Paso County TX TX Culex tarsalis Mann et al. https://www.ncbi.nlm.nih.gov/nuccore/JX015523 10997 SW03 -KC333375 2012-08-04 North America USA Texas Harris Co. TX Passer domesticus Mann et al. https://www.ncbi.nlm.nih.gov/nuccore/KC333375 10932 SW03 -KF704147 2010-08-01 North America USA Arizona Maricopa County AZ AZ Culex quinquefasciatus Plante et al. https://www.ncbi.nlm.nih.gov/nuccore/KF704147 11008 SW03 -KF704153 2010-08-06 North America USA Arizona Maricopa County AZ AZ Culex quinquefasciatus Plante et al. https://www.ncbi.nlm.nih.gov/nuccore/KF704153 11017 SW03 -KJ145829 2010-XX-XX North America USA Corvus brachyrhynchos Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ145829 10455 SW03 -KJ501117 2010-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501117 10954 SW03 -KJ501118 2011-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501118 11005 SW03 -KJ501120 2010-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501120 10951 SW03 -KJ501121 2011-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501121 11031 SW03 -KJ501122 2011-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501122 11033 SW03 -KJ501124 2010-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501124 11007 SW03 -KJ501170 2011-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501170 10457 SW03 -KJ501222 2012-XX-XX North America USA Culex Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501222 11029 SW03 -KJ501434 2012-XX-XX North America USA Pelecanus erythrorhynchos Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501434 10979 WN02 -KM012172 2012-XX-XX North America USA Texas TX Homo sapiens Grinev et al. https://www.ncbi.nlm.nih.gov/nuccore/KM012172 11029 SW03 -KM012177 2012-XX-XX North America USA Wyoming WY Homo sapiens Grinev et al. https://www.ncbi.nlm.nih.gov/nuccore/KM012177 11029 WN02 -KR348937 2010-08-06 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348937 10299 SW03 -KR348938 2011-02-15 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348938 10263 SW03 -KR348940 2010-08-06 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348940 10299 SW03 -KR348941 2011-08-30 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348941 10299 SW03 -KR348942 2011-08-30 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348942 10299 SW03 -KR348944 2010-09-14 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348944 10299 SW03 -KR348976 2011-07-18 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348976 10135 SW03 -KR348977 2011-08-15 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348977 10216 SW03 -KR348981 2011-01-09 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348981 10135 SW03 -KR348993 2011-07-21 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348993 10260 SW03 -KT020853 2014-10-14 North America USA Homo sapiens Grubaugh et al. https://www.ncbi.nlm.nih.gov/nuccore/KT020853 10299 WN02 -KX547286 2015-09-03 North America USA New York Chautauqua NY Culiseta Shabman et al. 42.209869 -79.470428 https://www.ncbi.nlm.nih.gov/nuccore/KX547286 10785 WN02 -KX547353 2000-07-11 North America USA New York Suffolk Co. NY Culex Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547353 10787 NY99 -KX547361 2010-08-12 North America USA New York Suffolk Co. NY Culex Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547361 10787 SW03 -KX547375 2011-09-08 North America USA New York Oswego Co. NY Culiseta Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547375 10787 SW03 -KX547395 2000-08-31 North America USA New York Suffolk Co. NY Culex Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547395 10787 NY99 -KX547410 2012-07-30 North America USA New York Oswego Co. NY Culiseta Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547410 10787 WN02 -KX547456 2012-07-31 North America USA New York Chautauqua Co. NY Culex Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547456 10785 WN02 -KX547460 2013-08-06 North America USA New York Madison Co. NY Aedes sp. Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547460 10787 WN02 -KX547482 2013-08-07 North America USA New York Oswego Co. NY Culiseta Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547482 10787 WN02 -KX547519 2000-09-01 North America USA New York Westchester Co. NY Culex Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547519 10787 NY99 -KX547548 2014-09-02 North America USA New York Oswego Co. NY Culiseta Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547548 10786 WN02 -KX547552 2010-09-16 North America USA New York Kings Co. NY Cyanocitta cristata Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547552 10787 SW03 -KX547602 2000-09-01 North America USA New York Westchester Co. NY Culex Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547602 10787 NY99 -KY216155 2012-07-31 North America USA Culex pipiens Ehrbar et al. https://www.ncbi.nlm.nih.gov/nuccore/KY216155 11007 WN02 -MF175815 2012-10-09 North America USA Texas Dallas Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175815 10250 SW03 -MF175827 2013-08-07 North America USA Texas Dallas Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175827 10250 WN02 -MF175829 2013-08-06 North America USA Texas Dallas Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175829 10250 WN02 -MF175831 2015-09-22 North America USA Texas Denton Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175831 11032 WN02 -MF175839 2014-08-28 North America USA Texas Denton Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175839 11031 WN02 -MF175858 2015-09-22 North America USA Texas Collin Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175858 11032 WN02 -MF175863 2014-09-04 North America USA Texas Denton Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175863 11032 WN02 -MF175865 2015-09-16 North America USA Texas Montgomery Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175865 11035 WN02 -MF175866 2014-09-09 North America USA Texas El Paso Co. Tx TX Culex tarsalis Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175866 11032 SW03 -MF175873 2015-09-08 North America USA Texas Dallas Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175873 11030 WN02 -MG004533 2014-06-03 North America USA Arizona AZ Culex quinquefasciatus Hepp et al. https://www.ncbi.nlm.nih.gov/nuccore/MG004533 10803 SW03 -MG004537 2014-08-28 North America USA Arizona AZ Culex quinquefasciatus Hepp et al. https://www.ncbi.nlm.nih.gov/nuccore/MG004537 10803 SW03 -MG004540 2015-05-12 North America USA Arizona AZ Culex quinquefasciatus Hepp et al. https://www.ncbi.nlm.nih.gov/nuccore/MG004540 10803 SW03 -MH166901 2000-XX-XX North America USA Virginia Norfolk VA VA Aves Swetnam et al. https://www.ncbi.nlm.nih.gov/nuccore/MH166901 11025 NY99 -MH166903 2000-XX-XX North America USA Virginia Norfolk VA VA Aves Swetnam et al. https://www.ncbi.nlm.nih.gov/nuccore/MH166903 11026 NY99 -MH166904 2000-XX-XX North America USA Virginia Norfolk VA VA Aves Swetnam et al. https://www.ncbi.nlm.nih.gov/nuccore/MH166904 11018 NY99 -OQ721425 2004-05-25 North America USA California Los Angeles County CA CA Corvus brachyrhynchos Grubaugh et al. https://www.ncbi.nlm.nih.gov/nuccore/OQ721425 10302 WN02 -OQ721436 2015-01-01 North America USA Washington Grant County WA WA Corvidae Grubaugh et al. https://www.ncbi.nlm.nih.gov/nuccore/OQ721436 10302 SW03 -HM488126 1999-XX-XX North America USA Connecticut CT Corvus brachyrhynchos Armstrong et al. https://www.ncbi.nlm.nih.gov/nuccore/HM488126 10598 NY99 -HM488127 1999-XX-XX North America USA Connecticut CT Corvus brachyrhynchos Armstrong et al. https://www.ncbi.nlm.nih.gov/nuccore/HM488127 10625 NY99 -HM488130 2000-XX-XX North America USA Connecticut CT Culex salinarius Armstrong et al. https://www.ncbi.nlm.nih.gov/nuccore/HM488130 10621 NY99 -HM488132 2000-XX-XX North America USA Connecticut CT Culiseta melanura Armstrong et al. https://www.ncbi.nlm.nih.gov/nuccore/HM488132 10621 NY99 -HQ671707 1999-XX-XX North America USA Connecticut CT Culex pipiens Henn et al. https://www.ncbi.nlm.nih.gov/nuccore/HQ671707 10607 NY99 -AF202541 XXXX-XX-XX North America USA New York NY Jia et al. https://www.ncbi.nlm.nih.gov/nuccore/AF202541 10945 NY99 -AF206518 XXXX-XX-XX North America USA Connecticut Greenwich-Stanford Town Line CT Culex pipiens Anderson et al. https://www.ncbi.nlm.nih.gov/nuccore/AF206518 10975 NY99 -AF481864 XXXX-XX-XX Ciconiidae Malkinson et al. https://www.ncbi.nlm.nih.gov/nuccore/AF481864 11029 pre-NY +accession date region country division location state host is_lab_host authors latitude longitude url length clade_membership +JF957161 2006-XX-XX North America USA Idaho ID Anez et al. https://www.ncbi.nlm.nih.gov/nuccore/JF957161 11016 SW03 +JQ700438 2011-XX-XX North America USA Homo sapiens Anez et al. https://www.ncbi.nlm.nih.gov/nuccore/JQ700438 11016 SW03 +JX015523 2010-08-31 North America USA Texas El Paso County TX TX Culex tarsalis Mann et al. https://www.ncbi.nlm.nih.gov/nuccore/JX015523 10997 SW03 +KC333375 2012-08-04 North America USA Texas Harris Co. TX Passer domesticus Mann et al. https://www.ncbi.nlm.nih.gov/nuccore/KC333375 10932 SW03 +KF704147 2010-08-01 North America USA Arizona Maricopa County AZ AZ Culex quinquefasciatus Plante et al. https://www.ncbi.nlm.nih.gov/nuccore/KF704147 11008 SW03 +KF704153 2010-08-06 North America USA Arizona Maricopa County AZ AZ Culex quinquefasciatus Plante et al. https://www.ncbi.nlm.nih.gov/nuccore/KF704153 11017 SW03 +KJ145829 2010-XX-XX North America USA Corvus brachyrhynchos Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ145829 10455 SW03 +KJ501117 2010-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501117 10954 SW03 +KJ501118 2011-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501118 11005 SW03 +KJ501120 2010-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501120 10951 SW03 +KJ501121 2011-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501121 11031 SW03 +KJ501122 2011-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501122 11033 SW03 +KJ501124 2010-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501124 11007 SW03 +KJ501170 2011-XX-XX North America USA Culex tarsalis Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501170 10457 SW03 +KJ501222 2012-XX-XX North America USA Culex Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501222 11029 SW03 +KJ501434 2012-XX-XX North America USA Pelecanus erythrorhynchos Newman et al. https://www.ncbi.nlm.nih.gov/nuccore/KJ501434 10979 WN02 +KM012172 2012-XX-XX North America USA Texas TX Homo sapiens Grinev et al. https://www.ncbi.nlm.nih.gov/nuccore/KM012172 11029 SW03 +KM012177 2012-XX-XX North America USA Wyoming WY Homo sapiens Grinev et al. https://www.ncbi.nlm.nih.gov/nuccore/KM012177 11029 WN02 +KR348937 2010-08-06 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348937 10299 SW03 +KR348938 2011-02-15 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348938 10263 SW03 +KR348940 2010-08-06 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348940 10299 SW03 +KR348941 2011-08-30 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348941 10299 SW03 +KR348942 2011-08-30 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348942 10299 SW03 +KR348944 2010-09-14 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348944 10299 SW03 +KR348976 2011-07-18 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348976 10135 SW03 +KR348977 2011-08-15 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348977 10216 SW03 +KR348981 2011-01-09 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348981 10135 SW03 +KR348993 2011-07-21 Culex tarsalis Duggal et al. https://www.ncbi.nlm.nih.gov/nuccore/KR348993 10260 SW03 +KT020853 2014-10-14 North America USA Homo sapiens Grubaugh et al. https://www.ncbi.nlm.nih.gov/nuccore/KT020853 10299 WN02 +KX547286 2015-09-03 North America USA New York Chautauqua NY Culiseta Shabman et al. 42.209869 -79.470428 https://www.ncbi.nlm.nih.gov/nuccore/KX547286 10785 WN02 +KX547353 2000-07-11 North America USA New York Suffolk Co. NY Culex Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547353 10787 NY99 +KX547361 2010-08-12 North America USA New York Suffolk Co. NY Culex Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547361 10787 SW03 +KX547375 2011-09-08 North America USA New York Oswego Co. NY Culiseta Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547375 10787 SW03 +KX547395 2000-08-31 North America USA New York Suffolk Co. NY Culex Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547395 10787 NY99 +KX547410 2012-07-30 North America USA New York Oswego Co. NY Culiseta Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547410 10787 WN02 +KX547456 2012-07-31 North America USA New York Chautauqua Co. NY Culex Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547456 10785 WN02 +KX547460 2013-08-06 North America USA New York Madison Co. NY Aedes sp. Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547460 10787 WN02 +KX547482 2013-08-07 North America USA New York Oswego Co. NY Culiseta Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547482 10787 WN02 +KX547519 2000-09-01 North America USA New York Westchester Co. NY Culex Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547519 10787 NY99 +KX547548 2014-09-02 North America USA New York Oswego Co. NY Culiseta Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547548 10786 WN02 +KX547552 2010-09-16 North America USA New York Kings Co. NY Cyanocitta cristata Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547552 10787 SW03 +KX547602 2000-09-01 North America USA New York Westchester Co. NY Culex Shabman et al. https://www.ncbi.nlm.nih.gov/nuccore/KX547602 10787 NY99 +KY216155 2012-07-31 North America USA Culex pipiens Ehrbar et al. https://www.ncbi.nlm.nih.gov/nuccore/KY216155 11007 WN02 +MF175815 2012-10-09 North America USA Texas Dallas Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175815 10250 SW03 +MF175827 2013-08-07 North America USA Texas Dallas Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175827 10250 WN02 +MF175829 2013-08-06 North America USA Texas Dallas Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175829 10250 WN02 +MF175831 2015-09-22 North America USA Texas Denton Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175831 11032 WN02 +MF175839 2014-08-28 North America USA Texas Denton Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175839 11031 WN02 +MF175858 2015-09-22 North America USA Texas Collin Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175858 11032 WN02 +MF175863 2014-09-04 North America USA Texas Denton Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175863 11032 WN02 +MF175865 2015-09-16 North America USA Texas Montgomery Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175865 11035 WN02 +MF175866 2014-09-09 North America USA Texas El Paso Co. Tx TX Culex tarsalis Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175866 11032 SW03 +MF175873 2015-09-08 North America USA Texas Dallas Co. Tx TX Culex quinquefasciatus Aroh et al. https://www.ncbi.nlm.nih.gov/nuccore/MF175873 11030 WN02 +MG004533 2014-06-03 North America USA Arizona AZ Culex quinquefasciatus Hepp et al. https://www.ncbi.nlm.nih.gov/nuccore/MG004533 10803 SW03 +MG004537 2014-08-28 North America USA Arizona AZ Culex quinquefasciatus Hepp et al. https://www.ncbi.nlm.nih.gov/nuccore/MG004537 10803 SW03 +MG004540 2015-05-12 North America USA Arizona AZ Culex quinquefasciatus Hepp et al. https://www.ncbi.nlm.nih.gov/nuccore/MG004540 10803 SW03 +MH166901 2000-XX-XX North America USA Virginia Norfolk VA VA Aves Swetnam et al. https://www.ncbi.nlm.nih.gov/nuccore/MH166901 11025 NY99 +MH166903 2000-XX-XX North America USA Virginia Norfolk VA VA Aves Swetnam et al. https://www.ncbi.nlm.nih.gov/nuccore/MH166903 11026 NY99 +MH166904 2000-XX-XX North America USA Virginia Norfolk VA VA Aves Swetnam et al. https://www.ncbi.nlm.nih.gov/nuccore/MH166904 11018 NY99 +OQ721425 2004-05-25 North America USA California Los Angeles County CA CA Corvus brachyrhynchos Grubaugh et al. https://www.ncbi.nlm.nih.gov/nuccore/OQ721425 10302 WN02 +OQ721436 2015-01-01 North America USA Washington Grant County WA WA Corvidae Grubaugh et al. https://www.ncbi.nlm.nih.gov/nuccore/OQ721436 10302 SW03 +HM488126 1999-XX-XX North America USA Connecticut CT Corvus brachyrhynchos Armstrong et al. https://www.ncbi.nlm.nih.gov/nuccore/HM488126 10598 NY99 +HM488127 1999-XX-XX North America USA Connecticut CT Corvus brachyrhynchos Armstrong et al. https://www.ncbi.nlm.nih.gov/nuccore/HM488127 10625 NY99 +HM488130 2000-XX-XX North America USA Connecticut CT Culex salinarius Armstrong et al. https://www.ncbi.nlm.nih.gov/nuccore/HM488130 10621 NY99 +HM488132 2000-XX-XX North America USA Connecticut CT Culiseta melanura Armstrong et al. https://www.ncbi.nlm.nih.gov/nuccore/HM488132 10621 NY99 +HQ671707 1999-XX-XX North America USA Connecticut CT Culex pipiens Henn et al. https://www.ncbi.nlm.nih.gov/nuccore/HQ671707 10607 NY99 +AF202541 XXXX-XX-XX North America USA New York NY Jia et al. https://www.ncbi.nlm.nih.gov/nuccore/AF202541 10945 NY99 +AF206518 XXXX-XX-XX North America USA Connecticut Greenwich-Stanford Town Line CT Culex pipiens Anderson et al. https://www.ncbi.nlm.nih.gov/nuccore/AF206518 10975 NY99 +AF481864 XXXX-XX-XX Ciconiidae Malkinson et al. https://www.ncbi.nlm.nih.gov/nuccore/AF481864 11029 pre-NY \ No newline at end of file