diff --git a/CHANGELOG.md b/CHANGELOG.md index 3d1feb5bc..931d7fbfb 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -14,11 +14,13 @@ and this project follows to [Calendar Versioning](https://calver.org/). - Nishimura 2024 10.1371/journal.pone.0295924 (added by @alexhbnr) - Kirdok 2023 10.1038/s41598-023-48762-6 (added by @annaewhite) - Fiorin 2024 10.1038/s41598-024-52422-8 (added by @jfy133) +- Jackson 2024 10.1093/molbev/msae017(added by @iseultj) #### Ancient Single Genome: Host Associated - Majander 2024 10.1038/s41586-023-06965-x (added by @ilight1542) - Rozwalak 2024 10.1038/s41467-023-44370-0 (added by @rozwalak) +- Jackson 2024 10.1093/molbev/msae017(added by @iseultj) #### Ancient Metagenome: Environmental diff --git a/ancientmetagenome-hostassociated/libraries/ancientmetagenome-hostassociated_libraries.tsv b/ancientmetagenome-hostassociated/libraries/ancientmetagenome-hostassociated_libraries.tsv index cd96d8e1d..18a86d245 100644 --- a/ancientmetagenome-hostassociated/libraries/ancientmetagenome-hostassociated_libraries.tsv +++ b/ancientmetagenome-hostassociated/libraries/ancientmetagenome-hostassociated_libraries.tsv @@ -2488,3 +2488,71 @@ Fiorin2024 2024 10.1038/s41598-024-52422-8 P18 ENA PRJEB67363 ERS16464521 DC-AE_ Fiorin2024 2024 10.1038/s41598-024-52422-8 P68 ENA PRJEB67363 ERS16464520 DC-AE_9 double PfuTurbo Cx Hotstart DNA none NA Illumina HiSeq X PAIRED WGS 33962022 ERR12115114 ftp.sra.ebi.ac.uk/vol1/fastq/ERR121/014/ERR12115114/ERR12115114_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR121/014/ERR12115114/ERR12115114_2.fastq.gz 821372f3c4d767098a619713e857d8cc;a4e78a6375b52d3faf94ea5312ac39a5 1018886070;1048915555 Fiorin2024 2024 10.1038/s41598-024-52422-8 P45 ENA PRJEB67363 ERS16464519 DC-AA_2 double PfuTurbo Cx Hotstart DNA none NA Illumina HiSeq X PAIRED WGS 44872334 ERR12115113 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HiSeq 2500 SINGLE WGS 28637756 ERR11660465 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/065/ERR11660465/ERR11660465.fastq.gz 5baf93ea4f279072e3f0d44e0f5980c9 2169685309 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX2-LIB1-57-PCR3-Mi05 double AccuPrime Pfx DNA none NA Illumina MiSeq SINGLE WGS 443501 ERR11660453 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/053/ERR11660453/ERR11660453.fastq.gz d91aa67d3c80db97e520115cf8075ffe 22940125 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX3-UDG1-26-PCR1-Hi4 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 32567767 ERR11660458 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/058/ERR11660458/ERR11660458.fastq.gz 90832793c9d0500911806db7beac6b14 2427469246 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX1-LIB1-53-PCR3-Mi06 double AccuPrime Pfx DNA none NA Illumina MiSeq SINGLE WGS 794689 ERR11660452 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NovaSeq 6000 PAIRED WGS 8961382 ERR11660406 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/006/ERR11660406/ERR11660406_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/006/ERR11660406/ERR11660406_2.fastq.gz a8e6609146aaaf5c74cb780005facfaa;3dea59a59c1b1867fa6fc18f46ec15fa 146518983;143428826 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-74_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 954348 ERR11660407 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/007/ERR11660407/ERR11660407_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/007/ERR11660407/ERR11660407_2.fastq.gz 02c8459c5ed34650bb02fd263d21bd0a;51beb18876b203782e637c7f0bf95f4c 26763192;25595476 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-75_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 8803890 ERR11660408 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/008/ERR11660408/ERR11660408_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/008/ERR11660408/ERR11660408_2.fastq.gz e2c295183cea7739c8fd0ff4e0fe5319;1985c7666d3ba6745246e33a919ecc40 140813411;143978649 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-75_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 937962 ERR11660410 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/010/ERR11660410/ERR11660410_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/010/ERR11660410/ERR11660410_2.fastq.gz 3f87a6d7d9ca1eb5df32cd93f9a66f25;cb49ddfb3a589ea1e38e1c527093d476 24872371;24397508 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-78_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 1290082 ERR11660419 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/019/ERR11660419/ERR11660419_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/019/ERR11660419/ERR11660419_2.fastq.gz 233bf1ab18d97fad49f1bb5484f2c088;ec76be62522d7fd73d6b4c9e2935e136 35851914;34375810 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-79_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 11145480 ERR11660420 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/020/ERR11660420/ERR11660420_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/020/ERR11660420/ERR11660420_2.fastq.gz ac5c0e0ce0f818c55c67eaf72416fe0f;9cebd0ca4e52ea80483593635323e887 178300420;183061766 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-80_6-PCR1-Nova16-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 11252586 ERR11660424 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/024/ERR11660424/ERR11660424_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/024/ERR11660424/ERR11660424_2.fastq.gz adfb95f2f75fb41bda1406f3641cf4ed;047e0a7fae662f4f8787ceeef670163b 182599851;179187636 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-80_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 1032062 ERR11660425 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/025/ERR11660425/ERR11660425_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/025/ERR11660425/ERR11660425_2.fastq.gz 3fcc2117242154932b6382ab9f8ab2a4;4ea24d58af027a524a20f4808e4ac1ea 27517633;28773829 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-81_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 11184792 ERR11660426 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/026/ERR11660426/ERR11660426_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/026/ERR11660426/ERR11660426_2.fastq.gz 904aedeb6b30dbb6ca88b733cd73dfa4;395ca80600fa9a4823c26ed61605d7ba 183165865;178901785 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-81_6-PCR1-Nova16-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 11168602 ERR11660427 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/027/ERR11660427/ERR11660427_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/027/ERR11660427/ERR11660427_2.fastq.gz 378c0a501f4ab156d9c2c384dab9b5ac;84db574b20d5254da215cf8fdf458118 181992370;178329735 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-71_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 11998844 ERR11660399 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/099/ERR11660399/ERR11660399_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/099/ERR11660399/ERR11660399_2.fastq.gz c59d759729b8405e7bc027df59aa8253;d58874c1365e20a57831a372a1d9f570 196338082;192233483 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-73_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 12676128 ERR11660402 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/002/ERR11660402/ERR11660402_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/002/ERR11660402/ERR11660402_2.fastq.gz 63e3466d8a80042f1a1970e3ce7b7c83;fa31dc430b146af20ed800fdb86d32e2 203272172;209195816 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-74_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 8973090 ERR11660405 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/005/ERR11660405/ERR11660405_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/005/ERR11660405/ERR11660405_2.fastq.gz 8f11ebe7e94c3ff823fe2bc695cefa48;0b0068c1413c54186217963438e28272 147450176;143879414 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-75_6-PCR1-Nova16-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 8792696 ERR11660409 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/009/ERR11660409/ERR11660409_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/009/ERR11660409/ERR11660409_2.fastq.gz 417a1eef613ee4343a54cd3800e037c8;be5d2e63c4248ef822f9481168f04837 140379734;143132703 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-76_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 1250832 ERR11660413 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/013/ERR11660413/ERR11660413_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/013/ERR11660413/ERR11660413_2.fastq.gz 69862e44abeb72354e745c39eee56609;7f3b9c9dbfc486159185fd996d0872cc 33702570;34941311 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-79_6-PCR1-Nova16-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 11134944 ERR11660421 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/021/ERR11660421/ERR11660421_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/021/ERR11660421/ERR11660421_2.fastq.gz 955a103a3ba817d27d1a216e50546e2c;b43a2425c50f76fdf95a941e52bcbc06 177811178;181991078 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-80_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 11260922 ERR11660423 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/023/ERR11660423/ERR11660423_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/023/ERR11660423/ERR11660423_2.fastq.gz 10d32a38de1662590f284ff3c158cc9f;5990f335b3f38c5664ff1ce6a4911403 183714771;179662991 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-71_6-PCR1-Nova16-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 12001112 ERR11660400 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/000/ERR11660400/ERR11660400_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/000/ERR11660400/ERR11660400_2.fastq.gz a4e7dc0c73ec4b136e186152f41fcc0c;b5a62fcfef7ddf10f1117c13d40492f5 195396449;191847862 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-71_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 1250556 ERR11660401 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/001/ERR11660401/ERR11660401_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/001/ERR11660401/ERR11660401_2.fastq.gz 44cd455c9a804c3e59aeb23b2a773a62;8f99d15e040de5d7e95dbd48a1f7ffc2 34620502;33374527 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-76_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 12044670 ERR11660411 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/011/ERR11660411/ERR11660411_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/011/ERR11660411/ERR11660411_2.fastq.gz 9eda78dcb6d7033d9c4cdbc5228be3fd;377cb489af3fe8c5ebffd409ed4092b4 197271541;192422500 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-76_6-PCR1-Nova16-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 12038962 ERR11660412 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/012/ERR11660412/ERR11660412_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/012/ERR11660412/ERR11660412_2.fastq.gz 6d1a6fa7200d2c97044703d5927a000f;81ed6a7d67dc3b7b2e2d5a9e3c3ef7fc 196159488;191937897 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-77_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 13112750 ERR11660414 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/014/ERR11660414/ERR11660414_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/014/ERR11660414/ERR11660414_2.fastq.gz 36dea522b91f2cb94f84af3b30f5c32d;8f328b9e11696d23d59ee579fd1d7dc8 209935149;214549833 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-77_6-PCR1-Nova16-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 13122580 ERR11660415 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/015/ERR11660415/ERR11660415_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/015/ERR11660415/ERR11660415_2.fastq.gz d13e74eaa55c63342c1e4809a6dadbc3;7c15e5344c601b78cd122b9df320dcee 213565336;209603343 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-77_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 1395530 ERR11660416 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/016/ERR11660416/ERR11660416_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/016/ERR11660416/ERR11660416_2.fastq.gz 756ae9a52ad54b6d32c3706fc57b8604;5b8b54a89f3bc4b3b1c9d867283e6c2c 37903659;39540661 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-78_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 11236286 ERR11660417 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/017/ERR11660417/ERR11660417_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/017/ERR11660417/ERR11660417_2.fastq.gz 3d651d50e27f9f10a31c3862abc7a5a3;2887f52434034856f5cd37f11068d0c1 179402805;183343292 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-78_6-PCR1-Nova16-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 11231756 ERR11660418 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/018/ERR11660418/ERR11660418_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/018/ERR11660418/ERR11660418_2.fastq.gz 627f5411fd67ad8260a4d0d9b473c763;6978e340565dac202c3de45950fe238b 182381695;179027948 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-79_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 1270794 ERR11660422 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/022/ERR11660422/ERR11660422_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/022/ERR11660422/ERR11660422_2.fastq.gz 4117085e318470c624155b40dedf8a1f;7097e4710b799b16212f64015a162f5e 35845656;34217849 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-81_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 1232006 ERR11660428 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/028/ERR11660428/ERR11660428_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/028/ERR11660428/ERR11660428_2.fastq.gz 69e76ce9595ca4533631933911695927;ea13c3946b59228d1a6336b3c3d26304 34802725;33145656 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-88_13-PCR1-NSB2 double AccuPrime Pfx DNA full-udg NA Illumina NovaSeq 6000 PAIRED WGS 12564 ERR11660429 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/029/ERR11660429/ERR11660429_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/029/ERR11660429/ERR11660429_2.fastq.gz 3c8f69d11dde17b136b404dc70bb7e90;0878d629cab26f12798f8ebf9234b213 396768;441328 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX1-LIB1-52-PCR1-Mi06 double AccuPrime Pfx DNA none NA Illumina MiSeq SINGLE WGS 1577072 ERR11660434 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/034/ERR11660434/ERR11660434.fastq.gz 79171bf9e96950112a878cbd4c7a5c34 82859507 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX2-LIB1-56-PCR3-Mi06 double AccuPrime Pfx DNA none NA Illumina MiSeq SINGLE WGS 1128940 ERR11660436 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/036/ERR11660436/ERR11660436.fastq.gz 8b164dbc44e8bd7f764fd85cc42f88ea 59936777 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG1-15-PCR1-Hi5 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 24035523 ERR11660440 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/040/ERR11660440/ERR11660440.fastq.gz 2b5c3a919a4df8de3d9b94acccb9c2ed 1914903930 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG1-16-PCR1-Hi5 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 23497859 ERR11660441 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/041/ERR11660441/ERR11660441.fastq.gz cf9fb82e716661f48de742f2f47f92d5 1864868857 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG1-63-PCR2-Hi4 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 18439686 ERR11660443 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/043/ERR11660443/ERR11660443.fastq.gz 8730426537ea1e8e3e6c281518555475 1506178645 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX1-LIB1-52-PCR1-Mi05 double AccuPrime Pfx DNA none NA Illumina MiSeq SINGLE WGS 452737 ERR11660433 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/033/ERR11660433/ERR11660433.fastq.gz 374a935d73b4199a22e024babbedf7e3 23936044 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX2-LIB1-56-PCR3-Mi05 double AccuPrime Pfx DNA none NA Illumina MiSeq SINGLE WGS 333458 ERR11660435 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/035/ERR11660435/ERR11660435.fastq.gz 3c6a25b7f3d6fef9fa857afe25dfe0b4 17830383 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG1-12-PCR1-Hi5 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 17670590 ERR11660438 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/038/ERR11660438/ERR11660438.fastq.gz 2882ac60966dded219ba321a4a56c93f 1417034149 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG1-14-PCR1-Hi5 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 27339820 ERR11660439 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/039/ERR11660439/ERR11660439.fastq.gz 877e876a71cd3efae78e6f05c2557d06 2169672943 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG1-17-PCR1-Hi5 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 16495109 ERR11660442 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/042/ERR11660442/ERR11660442.fastq.gz c88876769ab17357c0475814352f742b 1320409491 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG1-64-PCR1-Hi4 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 19308888 ERR11660444 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/044/ERR11660444/ERR11660444.fastq.gz 3e12ce4ee994e371bec33b5bea02e0eb 1599722209 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG1-9-PCR1-Hi5 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 26590121 ERR11660447 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/047/ERR11660447/ERR11660447.fastq.gz bf632dda34fb5144f8dd477d37f33c7b 2111580063 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG2-10-PCR1-Hi5 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 22917974 ERR11660448 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/048/ERR11660448/ERR11660448.fastq.gz f7a808e92b65d17742a9126e72a341a9 1899167830 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG2-13-PCR2-Hi5 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 24565681 ERR11660449 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/049/ERR11660449/ERR11660449.fastq.gz 0c35ecb95158ca03f60f1b3217615a0e 1988698485 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-LIB1-40-PCR3-Mi05 double AccuPrime Pfx DNA none NA Illumina MiSeq SINGLE WGS 186473 ERR11660437 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/037/ERR11660437/ERR11660437.fastq.gz 5b980cc8700ec4d70cf209261bcddb92 9765214 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG1-65-PCR1-Hi4 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 18075792 ERR11660445 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/045/ERR11660445/ERR11660445.fastq.gz 9e974e9078f2ec455545f41de0805fa3 1473539606 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG1-7-PCR1-Hi5 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 52644806 ERR11660446 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/046/ERR11660446/ERR11660446.fastq.gz 31fdd8566f68fbe51e47b3c5ea29a5e1 4217640964 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-A ENA PRJEB64128 ERS15977752 KGH1-A-EX3-UDG2-8-PCR2-Hi5 double AccuPrime Pfx DNA full-udg NA Illumina HiSeq 2500 SINGLE WGS 21524540 ERR11660450 ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/050/ERR11660450/ERR11660450.fastq.gz f89c5d6ac5e6cb9519a38efad1a8835a 1766801606 diff --git a/ancientmetagenome-hostassociated/samples/ancientmetagenome-hostassociated_samples.tsv b/ancientmetagenome-hostassociated/samples/ancientmetagenome-hostassociated_samples.tsv index 2b78ab4df..ce14ef6d2 100644 --- a/ancientmetagenome-hostassociated/samples/ancientmetagenome-hostassociated_samples.tsv +++ b/ancientmetagenome-hostassociated/samples/ancientmetagenome-hostassociated_samples.tsv @@ -1422,3 +1422,7 @@ Fiorin2024 2024 10.1038/s41598-024-52422-8 St Leonard's Leper Hospital 52.576 -0 Fiorin2024 2024 10.1038/s41598-024-52422-8 St Leonard's Leper Hospital 52.576 -0.254 United Kingdom P68 Homo sapiens 900 10.5284/1046113 oral dental calculus ENA PRJEB67363 ERS16464520 Fiorin2024 2024 10.1038/s41598-024-52422-8 St Leonard's Leper Hospital 52.576 -0.254 United Kingdom P45 Homo sapiens 900 10.5284/1046113 oral dental calculus ENA PRJEB67363 ERS16464519 Fiorin2024 2024 10.1038/s41598-024-52422-8 St Leonard's Leper Hospital 52.576 -0.254 United Kingdom P112 Homo sapiens 900 10.5284/1046113 oral dental calculus ENA PRJEB67363 ERS16464522 +Jackson2024 2024 10.1093/molbev/msae017 Killuragh 52.6 -8.33 Ireland KGH2-F Homo sapiens 3800 10.1093/molbev/msae017 oral tooth ENA PRJEB64128 ERS15977755 +Jackson2024 2024 10.1093/molbev/msae017 Killuragh 52.6 -8.33 Ireland KGH2-B Homo sapiens 3800 10.1093/molbev/msae017 oral tooth ENA PRJEB64128 ERS15977754 +Jackson2024 2024 10.1093/molbev/msae017 Killuragh 52.6 -8.33 Ireland KGH1-E Homo sapiens 3800 10.1093/molbev/msae017 oral tooth ENA PRJEB64128 ERS15977753 +Jackson2024 2024 10.1093/molbev/msae017 Killuragh 52.6 -8.33 Ireland KGH1-A Homo sapiens 3800 10.1093/molbev/msae017 oral tooth ENA PRJEB64128 ERS15977752 diff --git a/ancientsinglegenome-hostassociated/libraries/ancientsinglegenome-hostassociated_libraries.tsv b/ancientsinglegenome-hostassociated/libraries/ancientsinglegenome-hostassociated_libraries.tsv index fc2b99dba..df37ac669 100644 --- a/ancientsinglegenome-hostassociated/libraries/ancientsinglegenome-hostassociated_libraries.tsv +++ b/ancientsinglegenome-hostassociated/libraries/ancientsinglegenome-hostassociated_libraries.tsv @@ -2994,3 +2994,56 @@ Majander2024 2024 10.1038/s41586-023-06965-x ZH1557 ENA PRJEB62647 ERS15463030 Z Majander2024 2024 10.1038/s41586-023-06965-x ZH1390 ENA PRJEB62647 ERS15463029 ZH1390 double AmpliTaq Gold DNA none NextSeq 500 PAIRED Unknown 23585502 ERR11483915 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR114/015/ERR11483915/ERR11483915_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR114/015/ERR11483915/ERR11483915_2.fastq.gz 6eaabb4849154148d5e876bf0bf6349c;02f0635ede3c7eca60d800459736e3da 502526894;473323928 Majander2024 2024 10.1038/s41586-023-06965-x ZH1540 ENA PRJEB62647 ERS15463027 ZH1540 double AmpliTaq Gold DNA none NextSeq 500 PAIRED Unknown 20252894 ERR11483917 fastq_all ftp.sra.ebi.ac.uk/vol1/fastq/ERR114/017/ERR11483917/ERR11483917_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR114/017/ERR11483917/ERR11483917_2.fastq.gz 214df0376a6ee084099b8f7356baa8fb;c3a241e2a911c6b672eb2ee21e374b02 436283340;449480697 Rozwalak2024 2024 10.1038/s41467-023-44370-0 Zape3 GenBank PRJNA561510 BK063464 Zape3 double Phusion Hot Start High-Fidelity DNA none Illumina HiSeq 4000 PAIRED WGS NA BK063464.1 fasta_consensus https://www.ebi.ac.uk/ena/browser/api/fasta/BK063464.1 6e89d2506d7f411168a32546fb9d293d 37316 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-F ENA PRJEB64128 ERS15977755 KGH2-F-EX3-UDG1-62-PCR1-Hi5 double AccuPrime Pfx DNA full-udg Illumina HiSeq 2500 SINGLE WGS 32863597 ERR11660464 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/064/ERR11660464/ERR11660464.fastq.gz 9ed986c9657701718dcc576a4dc43965 2502706005 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-F ENA PRJEB64128 ERS15977755 KGH2-F-EX3-UDG1-65-PCR1-Hi5 double AccuPrime Pfx DNA full-udg Illumina HiSeq 2500 SINGLE WGS 32531149 ERR11660466 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/066/ERR11660466/ERR11660466.fastq.gz 422754336dedfa4ec80b3bf6282de8a7 2385234327 +Jackson2024 2024 10.1093/molbev/msae017 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Illumina HiSeq 2500 SINGLE WGS 32142506 ERR11660461 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/061/ERR11660461/ERR11660461.fastq.gz d5c66ba45e4dae40c1bd2e663908a747 2362843719 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-F ENA PRJEB64128 ERS15977755 KGH2-F-EX3-UDG1-38-PCR2-Hi5 double AccuPrime Pfx DNA full-udg Illumina HiSeq 2500 SINGLE WGS 33934341 ERR11660462 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/062/ERR11660462/ERR11660462.fastq.gz 2026e4973e8a7e367805aec1672da6e7 2488557649 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-F ENA PRJEB64128 ERS15977755 KGH2-F-EX3-UDG1-64-PCR1-Hi5 double AccuPrime Pfx DNA full-udg Illumina HiSeq 2500 SINGLE WGS 28637756 ERR11660465 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/065/ERR11660465/ERR11660465.fastq.gz 5baf93ea4f279072e3f0d44e0f5980c9 2169685309 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-F ENA PRJEB64128 ERS15977755 KGH2-F-EX3-UDG1.forsythia double AccuPrime Pfx DNA full-udg Illumina HiSeq 2500 SINGLE WGS 221487 ERR11658336 fastq_mapped ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/036/ERR11658336/ERR11658336.fastq.gz a9c1c872e5a8b54a9b136b18ddbb2dd3 7896761 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-F ENA PRJEB64128 ERS15977755 KGH2-F-EX3-UDG1-94_3-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 PAIRED WGS 1119516 ERR11660431 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/031/ERR11660431/ERR11660431_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/031/ERR11660431/ERR11660431_2.fastq.gz e99fd3e4ff55970048a320e75a88ff27;e874487f345a12e35afe886a998260c1 31350760;29310998 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-F ENA PRJEB64128 ERS15977755 KGH2-F-EX3-LIB1-71-PCR1-Mi09 double AccuPrime Pfx DNA none Illumina MiSeq SINGLE WGS 1114567 ERR11660460 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/060/ERR11660460/ERR11660460.fastq.gz d3ca9d0846ebd58049c3f291e4cd4fc7 57414096 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-F ENA PRJEB64128 ERS15977755 KGH2-F-EX3-UDG1-42-PCR1-Hi5 double AccuPrime Pfx DNA full-udg Illumina HiSeq 2500 SINGLE WGS 30014392 ERR11660463 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/063/ERR11660463/ERR11660463.fastq.gz debcd720461fe720765ac2815e9bfde3 2269019544 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX1-LIB1-53-PCR3-Mi05 double AccuPrime Pfx DNA none Illumina MiSeq SINGLE WGS 317102 ERR11660451 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/051/ERR11660451/ERR11660451.fastq.gz 8e7282bb78e8c4087d67258d8b96b811 16721393 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX3-UDG1-24-PCR2-Hi4 double AccuPrime Pfx DNA full-udg Illumina HiSeq 2500 SINGLE WGS 39319672 ERR11660456 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/056/ERR11660456/ERR11660456.fastq.gz 712c8c61322a62203d3dc31a8de8d595 2931624690 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX3-UDG1-25-PCR3-Hi4 double AccuPrime Pfx DNA full-udg Illumina HiSeq 2500 SINGLE WGS 33535041 ERR11660457 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/057/ERR11660457/ERR11660457.fastq.gz 3b294f3e8abed23e0fb1a619211b1f1d 2507060016 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX3-UDG1-Hi4.mutans double AccuPrime Pfx DNA full-udg Illumina HiSeq 2500 SINGLE WGS 3493602 ERR11658334 fastq_mapped ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/034/ERR11658334/ERR11658334.fastq.gz 7deaa96d038b2e8e1c1cbdf125dc903a 139876792 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX2-LIB1-57-PCR3-Mi05 double AccuPrime Pfx DNA none Illumina MiSeq SINGLE WGS 443501 ERR11660453 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/053/ERR11660453/ERR11660453.fastq.gz d91aa67d3c80db97e520115cf8075ffe 22940125 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX3-UDG1-26-PCR1-Hi4 double AccuPrime Pfx DNA full-udg Illumina HiSeq 2500 SINGLE WGS 32567767 ERR11660458 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/058/ERR11660458/ERR11660458.fastq.gz 90832793c9d0500911806db7beac6b14 2427469246 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX1-LIB1-53-PCR3-Mi06 double AccuPrime Pfx DNA none Illumina MiSeq SINGLE WGS 794689 ERR11660452 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/052/ERR11660452/ERR11660452.fastq.gz 9731a2510596b75d4164ea64cce32ff6 41743196 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX2-LIB1-57-PCR3-Mi06 double AccuPrime Pfx DNA none Illumina MiSeq SINGLE WGS 1427678 ERR11660454 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/054/ERR11660454/ERR11660454.fastq.gz 1e0d78a67386d4cbf76d5973f3833df5 73360473 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX3-LIB1-41-PCR3-Mi05 double AccuPrime Pfx DNA none Illumina MiSeq SINGLE WGS 168845 ERR11660455 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/055/ERR11660455/ERR11660455.fastq.gz e82b30b08242332fcaf36d6640b4cc0d 8915818 +Jackson2024 2024 10.1093/molbev/msae017 KGH2-B ENA PRJEB64128 ERS15977754 KGH2-B-EX3-UDG1-27-PCR3-Hi4 double AccuPrime Pfx DNA full-udg Illumina HiSeq 2500 SINGLE WGS 26740396 ERR11660459 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/059/ERR11660459/ERR11660459.fastq.gz a6b6e30f5ae051e9ba290b187061e8b8 1991905325 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1.forsythia double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 SINGLE WGS 841339 ERR11658335 fastq_mapped ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/035/ERR11658335/ERR11658335.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/035/ERR11658335/ERR11658335_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/035/ERR11658335/ERR11658335_2.fastq.gz 2dcd1c6118c2a5a91ad32e02d8387bf3;ba697edc60ca5ccc3f8983a54142251d;297b106e886675b36c804f65066ee9c3 17115189;1558991;1587960 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-71_6-PCR1-Nova16-L002 double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 PAIRED WGS 12001112 ERR11660400 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/000/ERR11660400/ERR11660400_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/000/ERR11660400/ERR11660400_2.fastq.gz a4e7dc0c73ec4b136e186152f41fcc0c;b5a62fcfef7ddf10f1117c13d40492f5 195396449;191847862 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-71_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 PAIRED WGS 1250556 ERR11660401 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/001/ERR11660401/ERR11660401_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/001/ERR11660401/ERR11660401_2.fastq.gz 44cd455c9a804c3e59aeb23b2a773a62;8f99d15e040de5d7e95dbd48a1f7ffc2 34620502;33374527 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-76_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 PAIRED WGS 12044670 ERR11660411 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/011/ERR11660411/ERR11660411_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/011/ERR11660411/ERR11660411_2.fastq.gz 9eda78dcb6d7033d9c4cdbc5228be3fd;377cb489af3fe8c5ebffd409ed4092b4 197271541;192422500 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-76_6-PCR1-Nova16-L002 double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 PAIRED WGS 12038962 ERR11660412 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/012/ERR11660412/ERR11660412_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/012/ERR11660412/ERR11660412_2.fastq.gz 6d1a6fa7200d2c97044703d5927a000f;81ed6a7d67dc3b7b2e2d5a9e3c3ef7fc 196159488;191937897 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-77_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 PAIRED WGS 13112750 ERR11660414 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/014/ERR11660414/ERR11660414_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/014/ERR11660414/ERR11660414_2.fastq.gz 36dea522b91f2cb94f84af3b30f5c32d;8f328b9e11696d23d59ee579fd1d7dc8 209935149;214549833 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-77_6-PCR1-Nova16-L002 double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 PAIRED WGS 13122580 ERR11660415 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/015/ERR11660415/ERR11660415_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/015/ERR11660415/ERR11660415_2.fastq.gz d13e74eaa55c63342c1e4809a6dadbc3;7c15e5344c601b78cd122b9df320dcee 213565336;209603343 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-77_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 PAIRED WGS 1395530 ERR11660416 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/016/ERR11660416/ERR11660416_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/016/ERR11660416/ERR11660416_2.fastq.gz 756ae9a52ad54b6d32c3706fc57b8604;5b8b54a89f3bc4b3b1c9d867283e6c2c 37903659;39540661 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-78_6-PCR1-Nova16-L001 double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 PAIRED WGS 11236286 ERR11660417 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/017/ERR11660417/ERR11660417_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/017/ERR11660417/ERR11660417_2.fastq.gz 3d651d50e27f9f10a31c3862abc7a5a3;2887f52434034856f5cd37f11068d0c1 179402805;183343292 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-78_6-PCR1-Nova16-L002 double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 PAIRED WGS 11231756 ERR11660418 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/018/ERR11660418/ERR11660418_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/018/ERR11660418/ERR11660418_2.fastq.gz 627f5411fd67ad8260a4d0d9b473c763;6978e340565dac202c3de45950fe238b 182381695;179027948 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-79_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 PAIRED WGS 1270794 ERR11660422 fastq_hostremoved ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/022/ERR11660422/ERR11660422_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/022/ERR11660422/ERR11660422_2.fastq.gz 4117085e318470c624155b40dedf8a1f;7097e4710b799b16212f64015a162f5e 35845656;34217849 +Jackson2024 2024 10.1093/molbev/msae017 KGH1-E ENA PRJEB64128 ERS15977753 KGH1-E-WEX1-UDG1-81_6-PCR1-Nova19-L002 double AccuPrime Pfx DNA full-udg Illumina NovaSeq 6000 PAIRED WGS 1232006 ERR11660428 fastq_hostremoved 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ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/027/ERR11660427/ERR11660427_1.fastq.gz;ftp.sra.ebi.ac.uk/vol1/fastq/ERR116/027/ERR11660427/ERR11660427_2.fastq.gz 378c0a501f4ab156d9c2c384dab9b5ac;84db574b20d5254da215cf8fdf458118 181992370;178329735 \ No newline at end of file diff --git a/ancientsinglegenome-hostassociated/samples/ancientsinglegenome-hostassociated_samples.tsv b/ancientsinglegenome-hostassociated/samples/ancientsinglegenome-hostassociated_samples.tsv index efb5671ea..3ccee6d07 100644 --- a/ancientsinglegenome-hostassociated/samples/ancientsinglegenome-hostassociated_samples.tsv +++ b/ancientsinglegenome-hostassociated/samples/ancientsinglegenome-hostassociated_samples.tsv @@ -663,3 +663,6 @@ Majander2024 2024 10.1038/s41586-023-06965-x Jabuticabeira II (UTM 22 J) -28.5 Majander2024 2024 10.1038/s41586-023-06965-x Jabuticabeira II (UTM 22 J) -28.588 -48.96 Brazil ZH1390 Homo sapiens 2300 10.1038/s41586-023-06965-x bacteria Treponema pallidum bone chromosome ENA raw PRJEB62647 ERS15463029 Majander2024 2024 10.1038/s41586-023-06965-x Jabuticabeira II (UTM 22 J) -28.588 -48.96 Brazil ZH1540 Homo sapiens 1800 10.1038/s41586-023-06965-x bacteria Treponema pallidum bone chromosome ENA raw PRJEB62647 ERS15463027 Rozwalak2024 2024 10.1038/s41467-023-44370-0 Cueva de los Muertos Chiquitos (Zape) 25.771 -105.786 Mexico Zape3 Homo sapiens 1300 10.1038/s41586-021-03532-0 virus Mushuvirus mushu palaeofaeces chromosome GenBank assembly PRJNA561510 BK063464 +Jackson2024 2024 10.1093/molbev/msae017 Killuragh 52.6 -8.33 Ireland KGH2-F Homo sapiens 3800 10.1093/molbev/msae017 bacteria Tannerella forsythia tooth chromosome ENA raw,reference_aligned PRJEB64128 ERS15977755 +Jackson2024 2024 10.1093/molbev/msae017 Killuragh 52.6 -8.33 Ireland KGH2-B Homo sapiens 3800 10.1093/molbev/msae017 bacteria Streptococcus mutans tooth chromosome ENA raw,reference_aligned PRJEB64128 ERS15977754 +Jackson2024 2024 10.1093/molbev/msae017 Killuragh 52.6 -8.33 Ireland KGH1-E Homo sapiens 3800 10.1093/molbev/msae017 bacteria Tannerella forsythia tooth chromosome ENA raw,reference_aligned PRJEB64128 ERS15977753