diff --git a/CHANGELOG.md b/CHANGELOG.md index 5841b7b54..80bc72297 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -15,6 +15,8 @@ and this project follows to [Calendar Versioning](https://calver.org/). #### Ancient Single Genome: Host Associated +- White 2021 10.3390/biology10121324 (added by @DianaSpurite, @jfy133, and @alexhbnr) + #### Ancient Metagenome: Environmental ### Changed @@ -198,7 +200,7 @@ and this project follows to [Calendar Versioning](https://calver.org/). - Vågene 2022 10.1038/s41467-022-28562-8 (added by @DianaSpurite) - Austin 2022 10.1038/s42003-022-03890-z (added by @DianaSpurite) - Guellil 2022 10.1126/sciadv.abo4435 (added by @DianaSpurite) -- Long 2022 10.1038/s42003-022-03527-1 (added by @jfy133 ) +- Long 2022 10.1038/s42003-022-03527-1 (added by @jfy133) #### Ancient Metagenome: Environmental diff --git a/ancientsinglegenome-hostassociated/libraries/ancientsinglegenome-hostassociated_libraries.tsv b/ancientsinglegenome-hostassociated/libraries/ancientsinglegenome-hostassociated_libraries.tsv index fb840bfa7..91cb58bc3 100644 --- a/ancientsinglegenome-hostassociated/libraries/ancientsinglegenome-hostassociated_libraries.tsv +++ b/ancientsinglegenome-hostassociated/libraries/ancientsinglegenome-hostassociated_libraries.tsv @@ -3105,3 +3105,9 @@ Lebrasseur2024 2024 10.1038/s41586-021-04018-9 UR17x29 ENA PRJEB44430 ERS7256200 Lebrasseur2024 2024 10.1038/s41586-021-04018-9 UR17x29 ENA PRJEB44430 ERS7256200 L1 double AccuPrime Pfx DNA half-udg Illumina HiSeq 4000 SINGLE WGS 9413628 ERR6466108 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR646/008/ERR6466108/ERR6466108.fastq.gz 082fa661d3351c0fac22e2e922dc3795 342573885 Lebrasseur2024 2024 10.1038/s41586-021-04018-9 UR17x29 ENA PRJEB44430 ERS7256200 L2 double AccuPrime Pfx DNA half-udg Illumina HiSeq 4000 SINGLE WGS 123717709 ERR6466109 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR646/009/ERR6466109/ERR6466109.fastq.gz 267fe0d4b684a1cf765ae560abdfbbc3 4352735230 Lebrasseur2024 2024 10.1038/s41586-021-04018-9 UR17x29 ENA PRJEB44430 ERS7256200 L4 double AccuPrime Pfx DNA half-udg Illumina HiSeq 4000 SINGLE WGS 141415855 ERR6466111 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR646/001/ERR6466111/ERR6466111.fastq.gz 7bed95eb12f3d17c93fd6d47c5edfd04 4974034411 +White2021 2021 10.3390/biology10121324 B2_B3 ENA PRJEB49091 ERS9769380 L022 double AmpliTaq Gold DNA none Illumina HiSeq 4000 PAIRED WGS 172363072 ERR13663673 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR136/073/ERR13663673/ERR13663673_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR136/073/ERR13663673/ERR13663673_2.fastq.gz 93fe32a1e7baafdbe2ab5fde69a6d998;47cf6d5fec371200015a493a0839c828 4381516936;4643855551 +White2021 2021 10.3390/biology10121324 B2_B5 ENA PRJEB49091 ERS9769381 L023 double AmpliTaq Gold DNA none Illumina HiSeq 4000 PAIRED WGS 165002236 ERR13663674 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR136/074/ERR13663674/ERR13663674_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR136/074/ERR13663674/ERR13663674_2.fastq.gz 370f2ee1d8d3929d4999d1ef6ba795f5;0390ac309d270d11f8ef01d1a98fe74f 4143803128;4491981331 +White2021 2021 10.3390/biology10121324 B2_B6 ENA PRJEB49091 ERS9769382 L024 double AmpliTaq Gold DNA none Illumina HiSeq 4000 PAIRED WGS 164114498 ERR13663676 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR136/076/ERR13663676/ERR13663676_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR136/076/ERR13663676/ERR13663676_2.fastq.gz abafcc2b76f2d56f01e5c6ed95f0f20c;e65f30975fa8ff540a9083b77b25646b 4147933772;4482524602 +White2021 2021 10.3390/biology10121324 B2_B6 ENA PRJEB49091 ERS9769382 L024-B double AmpliTaq Gold DNA none Illumina HiSeq 4000 PAIRED WGS 108865268 ERR13663675 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR136/075/ERR13663675/ERR13663675_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR136/075/ERR13663675/ERR13663675_2.fastq.gz 9f698e07345a859feb34cb4e99a55d11;d7d70554b02c6f5dc7952fd2485c163c 2589844121;2788114713 +White2021 2021 10.3390/biology10121324 B2_B7 ENA PRJEB49091 ERS9769383 L025-B double AmpliTaq Gold DNA none Illumina HiSeq 4000 PAIRED WGS 81293780 ERR13663677 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR136/077/ERR13663677/ERR13663677_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR136/077/ERR13663677/ERR13663677_2.fastq.gz 00eb8d335bfedd6a0569e708bb5be5f8;3b34fc20b2c7a012ce5d25d177d55dc8 2074741912;2130629421 +White2021 2021 10.3390/biology10121324 B2_B7 ENA PRJEB49091 ERS9769383 L025 double AmpliTaq Gold DNA none Illumina HiSeq 4000 PAIRED WGS 179780446 ERR13663678 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR136/078/ERR13663678/ERR13663678_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR136/078/ERR13663678/ERR13663678_2.fastq.gz 47149ec413c0a14645b7a838fc088507;1372803ee3d494b1876b82982c69d10c 4575913200;4879999751 diff --git a/ancientsinglegenome-hostassociated/samples/ancientsinglegenome-hostassociated_samples.tsv b/ancientsinglegenome-hostassociated/samples/ancientsinglegenome-hostassociated_samples.tsv index 81677362d..bdadf8bb5 100644 --- a/ancientsinglegenome-hostassociated/samples/ancientsinglegenome-hostassociated_samples.tsv +++ b/ancientsinglegenome-hostassociated/samples/ancientsinglegenome-hostassociated_samples.tsv @@ -705,3 +705,15 @@ Sun2024 2024 10.1038/s41467-024-47358-6 QuanErGou 43.65 92.16 China XBQM46 Homo Sun2024 2024 10.1038/s41467-024-47358-6 QuanErGou 43.65 92.16 China XBQM125 Homo sapiens 2900 10.1038/s41467-024-47358-6 virus Hepatitis B virus bone chromosome GSA reference_aligned PRJCA020853 SAMC3135944 Sun2024 2024 10.1038/s41467-024-47358-6 BeiFang 37.13 81.61 China 11KBM13 Homo sapiens 3400 10.1038/s41467-024-47358-6 virus Hepatitis B virus tooth chromosome GSA reference_aligned PRJCA020853 SAMC3135945 Lebrasseur2024 2024 10.1093/ve/vead087 Kamennyi Ambar 5 52.833 60.367 Russia UR17x29 Equus caballus 3800 10.1038/s41586-021-04018-9 virus Equid herpesvirus 4 bone chromosome ENA raw PRJEB44430 ERS7256200 +White2021 2021 10.3390/biology10121324 Kuygenzhar 51.103 71.720 Kazakhstan B2_B3 Homo sapiens 200 10.3390/biology10121324 bacteria Tannerella forsythia tooth chromosome ENA raw PRJEB49091 ERS9769380 +White2021 2021 10.3390/biology10121324 Kuygenzhar 51.103 71.720 Kazakhstan B2_B5 Homo sapiens 200 10.3390/biology10121324 bacteria Tannerella forsythia tooth chromosome ENA raw PRJEB49091 ERS9769381 +White2021 2021 10.3390/biology10121324 Kuygenzhar 51.103 71.720 Kazakhstan B2_B6 Homo sapiens 200 10.3390/biology10121324 bacteria Tannerella forsythia tooth chromosome ENA raw PRJEB49091 ERS9769382 +White2021 2021 10.3390/biology10121324 Kuygenzhar 51.103 71.720 Kazakhstan B2_B7 Homo sapiens 200 10.3390/biology10121324 bacteria Tannerella forsythia tooth chromosome ENA raw PRJEB49091 ERS9769383 +White2021 2021 10.3390/biology10121324 Kuygenzhar 51.103 71.720 Kazakhstan B2_B3 Homo sapiens 200 10.3390/biology10121324 bacteria Treponema denticola tooth chromosome ENA raw PRJEB49091 ERS9769380 +White2021 2021 10.3390/biology10121324 Kuygenzhar 51.103 71.720 Kazakhstan B2_B5 Homo sapiens 200 10.3390/biology10121324 bacteria Treponema denticola tooth chromosome ENA raw PRJEB49091 ERS9769381 +White2021 2021 10.3390/biology10121324 Kuygenzhar 51.103 71.720 Kazakhstan B2_B6 Homo sapiens 200 10.3390/biology10121324 bacteria Treponema denticola tooth chromosome ENA raw PRJEB49091 ERS9769382 +White2021 2021 10.3390/biology10121324 Kuygenzhar 51.103 71.720 Kazakhstan B2_B7 Homo sapiens 200 10.3390/biology10121324 bacteria Treponema denticola tooth chromosome ENA raw PRJEB49091 ERS9769383 +White2021 2021 10.3390/biology10121324 Kuygenzhar 51.103 71.720 Kazakhstan B2_B3 Homo sapiens 200 10.3390/biology10121324 bacteria Porphyromonas gingivalis tooth chromosome ENA raw PRJEB49091 ERS9769380 +White2021 2021 10.3390/biology10121324 Kuygenzhar 51.103 71.720 Kazakhstan B2_B5 Homo sapiens 200 10.3390/biology10121324 bacteria Porphyromonas gingivalis tooth chromosome ENA raw PRJEB49091 ERS9769381 +White2021 2021 10.3390/biology10121324 Kuygenzhar 51.103 71.720 Kazakhstan B2_B6 Homo sapiens 200 10.3390/biology10121324 bacteria Porphyromonas gingivalis tooth chromosome ENA raw PRJEB49091 ERS9769382 +White2021 2021 10.3390/biology10121324 Kuygenzhar 51.103 71.720 Kazakhstan B2_B7 Homo sapiens 200 10.3390/biology10121324 bacteria Porphyromonas gingivalis tooth chromosome ENA raw PRJEB49091 ERS9769383