From ffc6b9ec5390bbca017f4bd81e10eadad16372e3 Mon Sep 17 00:00:00 2001 From: Judith Ballesteros Date: Thu, 15 Aug 2024 10:37:09 +0200 Subject: [PATCH 1/2] Create 2023_Villa-IslasScience.janno --- 2023_Villa-IslasScience/2023_Villa-IslasScience.janno | 1 + 1 file changed, 1 insertion(+) create mode 100644 2023_Villa-IslasScience/2023_Villa-IslasScience.janno diff --git a/2023_Villa-IslasScience/2023_Villa-IslasScience.janno b/2023_Villa-IslasScience/2023_Villa-IslasScience.janno new file mode 100644 index 00000000..8b137891 --- /dev/null +++ b/2023_Villa-IslasScience/2023_Villa-IslasScience.janno @@ -0,0 +1 @@ + From c49856f7f16a762ad745d587ae0eade2536f3f04 Mon Sep 17 00:00:00 2001 From: Judith Ballesteros Date: Thu, 15 Aug 2024 15:30:46 +0200 Subject: [PATCH 2/2] Update 2023_Villa-IslasScience.janno --- .../2023_Villa-IslasScience.janno | 41 ++++++++++++++++++- 1 file changed, 40 insertions(+), 1 deletion(-) diff --git a/2023_Villa-IslasScience/2023_Villa-IslasScience.janno b/2023_Villa-IslasScience/2023_Villa-IslasScience.janno index 8b137891..daad8dd3 100644 --- a/2023_Villa-IslasScience/2023_Villa-IslasScience.janno +++ b/2023_Villa-IslasScience/2023_Villa-IslasScience.janno @@ -1 +1,40 @@ - +Poseidon_ID Genetic_Sex Group_Name Country Location Site Latitude Longitude Date_Type Date_C14_Labnr Date_C14_Uncal_BP Date_C14_Uncal_BP_Err Date_BC_AD_Start Date_BC_AD_Median Date_BC_AD_Stop Date_Note MT_Haplogroup Y_Haplogroup Source_Tissue Nr_Libraries Capture_Type UDG Library_Built Nr_SNPs Contamination Contamination_Err Contamination_Meas Contamination_Note Genetic_Source_Accession_IDs Primary_Contact Publication Library_Names +F9_ST_a M LaVentanaCave;NorthMexico;SierraTarahumara Mexico Chihuahua La Ventana Cave 32.79420 -112.24457 contextual n/a n/a n/a n/a 1100 n/a Dates are taken from Date (CE) in S1 C1c1a Q1a2a1-L54 Tooth 39 Shotgun;ArborComplete minus ds 1970412787 0.004533 0.001865306122 hapCon v0.4a1 Estimated from confidence interval SAMEA13300892 María C. Ávila-Arcos Villa-IslasScience2023 F9_2_E1_GGCGGAG_L004_R1_001.fastq__141111;F9_2_E1_GGCGGAG_L004_R1_001.fastq__150123;F9_2_E1_GGCGGAG_L005_R1_001.fastq__150123;F9_2_E1_GGCGGAG_L007_R1_001.fastq__150416__BC6217ANXX;F9_2_E1_GGCGGAG_L008_R1_001.fastq__150416__BC6217ANXX;F9_2_E1_GGCGGAG_L008_R1_001.fastq__150416;F9-2E1_S7_L001;F9-2E1_S7_L002;F9-2E1_S7_L003;F9-2E1_S7_L004;F9-2E2_S8_L001;F9-2E2_S8_L002;F9-2E2_S8_L003;F9-2E2_S8_L004;F9_2_E2_TGGACGT_L003;F9_2_E2_TGGACGT_L007;F9_2E2_TGGACGT_L007;F9_2_E2_TGGACGT_L008;F9_2_E3_AACCATG_L002;F9_2_E3_AACCATG_L005;F9_2_E3_AACCATG_L006_R1_001.fastq__150122;F9_2_E3_AACCATG_L006_R1_001.fastq__150416;F9_2E3_AACCATG_L006;F9_2_E3_AACCATG_L007;F9_2_E4_CAGGAAG_L005;F9_2_E4_CAGGAAG_L006;F9_2_E4_CAGGAAG_L007;F9_2E4_CAGGAAG_L008;F9E1_S1_L001-4;F9E2_S2_L001-4;MOM_F9_1_CGTTGGT_L001;MOM_F9_1_CGTTGGT_L007;MOM_F9_2_CTATACG_L001;MOMF9_CTTGCGG_L003;MOMF9_CTTGCGG_L004;MOMF9_CTTGCGG_L006;MOMF9_CTTGCGG_L008;momf9_e1_l1_AACCATG;Sample_ESW_CAATTA +MOM6_ST_a M LaVentanaCave;NorthMexico;SierraTarahumara Mexico Chihuahua La Ventana Cave 32.79420 -112.24457 contextual n/a n/a n/a n/a 1100 n/a Dates are taken from Date (CE) in S2 C1b11 Q1a2a1a1-M3 Tooth 6 Shotgun;ArborComplete minus ds 38106950 n/a n/a n/a n/a SAMEA13300893 María C. Ávila-Arcos Villa-IslasScience2024 2-3Run_MOM6;4-6Run_MOM6;ESW_MOM6_CCGATT;ESW_MOM6_TCGAG;mom6_e1;MOM6_S16 +P_CCM_b F CadereytadeMontes;CentralMexico;SierraGorda Mexico Querétaro Cadereyta de Montes 20.68987 -99.81808 contextual n/a n/a n/a 280 320 360 Dates are taken from Date (CE) in S3 A2d n/a Tooth 1 Shotgun;OtherCapture minus ds 41953 n/a n/a n/a n/a SAMEA13300894 María C. Ávila-Arcos Villa-IslasScience2025 Pepita;MA1XC1SS06;MA1DC1SS08 +2417Q_TOL_b M Toluquilla;CentralMexico;SierraGorda Mexico Querétaro Toluquilla 20.88378 -99.53097 contextual n/a n/a n/a 671 769 867 Dates are taken from Date (CE) in S4 B2l Q1a2a1a1-M3 Tooth 3 Shotgun minus ds 2697414785 0.002929 0.0004382653061 hapCon v0.4a1 Estimated from confidence interval SAMEA13300895 María C. Ávila-Arcos Villa-IslasScience2026 MA1GH1SS005;MA1TP5SS05;MA1XC1SS70;2417Q +333O_TOL_b U Toluquilla;CentralMexico;SierraGorda Mexico Querétaro Toluquilla 20.88378 -99.53097 contextual n/a n/a n/a 650 700 750 Dates are taken from Date (CE) in S5 B2l n/a Tooth 2 Shotgun;OtherCapture minus ds 4659596 n/a n/a n/a n/a SAMEA13300896 María C. Ávila-Arcos Villa-IslasScience2027 333O_S25;3330-mt +11R_R_b M Ranas;CentralMexico;SierraGorda Mexico Querétaro Ranas 20.92612 -99.56488 contextual n/a n/a n/a 729 769 809 Dates are taken from Date (CE) in S6 D1m Q1a2a1-L54 Tooth 5 Shotgun;ArborComplete;OtherCapture minus ds 32124713 n/a n/a n/a n/a SAMEA13300897 María C. Ávila-Arcos Villa-IslasScience2028 MA1GH1SS009;MA1TP5SS09;MA1XC1SS72;11R_S17;11R +6428A_TOL_b M Toluquilla;CentralMexico;SierraGorda Mexico Querétaro Toluquilla 20.88378 -99.53097 contextual n/a n/a n/a 734 784 834 Dates are taken from Date (CE) in S7 B2l n/a Tooth 2 Shotgun;OtherCapture minus ds 795524 n/a n/a n/a n/a SAMEA13300898 María C. Ávila-Arcos Villa-IslasScience2029 G428A_S27;G428A_S27 +7A_R_b M Ranas;CentralMexico;SierraGorda Mexico Querétaro Ranas 20.92612 -99.56488 n/a n/a n/a n/a n/a n/a n/a Dates are taken from Date (CE) in S8 A2d n/a Tooth 3 Shotgun;OtherCapture minus ds 107304 n/a n/a n/a n/a SAMEA13300899 María C. Ávila-Arcos Villa-IslasScience2030 MA1GH1SS004;MA1TP5SS04;MA1DC1SS10 +37AI_R_b U Ranas;CentralMexico;SierraGorda Mexico Querétaro Ranas 20.92612 -99.56488 n/a n/a n/a n/a n/a n/a n/a Dates are taken from Date (CE) in S9 A2d n/a Tooth 2 Shotgun;OtherCapture minus ds 319915 n/a n/a n/a n/a SAMEA13300900 María C. Ávila-Arcos Villa-IslasScience2031 3A7I_S28;37AI-mt +333Q_TOL_b U Toluquilla;CentralMexico;SierraGorda Mexico Querétaro Toluquilla 20.88378 -99.53097 contextual n/a n/a n/a 480 520 560 Dates are taken from Date (CE) in S10 A2d n/a Tooth 2 Shotgun;OtherCapture minus ds 41558 n/a n/a n/a n/a SAMEA13300901 María C. Ávila-Arcos Villa-IslasScience2032 333Q_S1;333Q_mt +2417C_TOL_a F Toluquilla;CentralMexico;SierraGorda Mexico Querétaro Toluquilla 20.88378 -99.53097 contextual n/a n/a n/a 1100 1160 1220 Dates are taken from Date (CE) in S11 A2d n/a Tooth 3 Shotgun;OtherCapture minus ds 39710 n/a n/a n/a n/a SAMEA13300902 María C. Ávila-Arcos Villa-IslasScience2033 MA1GH1SS003;MA1XC1SS02;MA1DC1SS14 +2417J_TOL_a M Toluquilla;CentralMexico;SierraGorda Mexico Querétaro Toluquilla 20.88378 -99.53097 contextual n/a n/a n/a 1101 1161 1221 Dates are taken from Date (CE) in S12 A2d n/a Tooth 4 Shotgun minus ds 2108051602 n/a n/a n/a n/a SAMEA13300903 María C. Ávila-Arcos Villa-IslasScience2034 MA1GH1SS001;MA1TP5SS01;2417J-2;2417J-2 +333A_TOL_a F Toluquilla;CentralMexico;SierraGorda Mexico Querétaro Toluquilla 20.88378 -99.53097 contextual n/a n/a n/a 1301 1351 1401 Dates are taken from Date (CE) in S13 B2c n/a Tooth 3 Shotgun;OtherCapture minus ds 688463 n/a n/a n/a n/a SAMEA13300904 María C. Ávila-Arcos Villa-IslasScience2035 333A_S29;333A_S8;333A-mt +333B_TOL_a U Toluquilla;CentralMexico;SierraGorda Mexico Querétaro Toluquilla 20.88378 -99.53097 contextual n/a n/a n/a 1301 1351 1401 Dates are taken from Date (CE) in S14 B2c n/a Tooth 5 Shotgun minus ds 2419444907 n/a n/a n/a n/a SAMEA13300905 María C. Ávila-Arcos Villa-IslasScience2036 MA1GH1SS002;MA1TP5SS02;MA1XC1SS46;333B_S2;333B +333C_TOL_a F Toluquilla;CentralMexico;SierraGorda Mexico Querétaro Toluquilla 20.88378 -99.53097 contextual n/a n/a n/a 1301 1351 1401 Dates are taken from Date (CE) in S15 B2c n/a Tooth 4 Shotgun;OtherCapture minus ds 23964895 n/a n/a n/a n/a SAMEA13300906 María C. Ávila-Arcos Villa-IslasScience2037 MA1XC1SS62;333C-2;333C-WGC;333C +E1_CdV_b U CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 n/a n/a n/a n/a n/a n/a n/a Dates are taken from Date (CE) in S16 n/a n/a Falanx 3 Shotgun;OtherCapture minus ds 249540 n/a n/a n/a n/a n/a María C. Ávila-Arcos Villa-IslasScience2038 AM1CV2SS01;AM1CV2SS30;AM1CV2SS030_S2 +E2_CdV_b U CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 n/a n/a n/a n/a n/a n/a n/a Dates are taken from Date (CE) in S17 n/a n/a condyle of inferior mandible 3 Shotgun;OtherCapture minus ds 1201851 n/a n/a n/a n/a n/a María C. Ávila-Arcos Villa-IslasScience2039 AM1CV2SS02;AM1CV2SS39;AM1CV2SS039_S1 +E4_CdV_b U CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 contextual n/a n/a n/a 670 770 870 Dates are taken from Date (CE) in S18 A2ai n/a Phalanx 3 Shotgun;ArborComplete minus ds 47333900 n/a n/a n/a n/a SAMEA13300912 María C. Ávila-Arcos Villa-IslasScience2040 AM1CV2SS04;AM1CV2SS27;AM1CV2SS027_S2 +E5_CdV_b F CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 contextual n/a n/a n/a -800 -660 -520 Dates are taken from Date (CE) in S19 n/a n/a Tooth 3 Shotgun;OtherCapture minus ds 36115 n/a n/a n/a n/a n/a María C. Ávila-Arcos Villa-IslasScience2041 AM1CV2SS05;AM1CV2SS40;AM1CV2SS040_S3 +EN_CdV_b U CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 n/a n/a n/a n/a n/a n/a n/a Dates are taken from Date (CE) in S20 n/a n/a Rib 3 Shotgun;OtherCapture minus ds 106781 n/a n/a n/a n/a n/a María C. Ávila-Arcos Villa-IslasScience2042 AM1CV2SS06;AM1CV2SS32;AM1CV2SS032_S7 +E6_CdV_b U CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 contextual n/a n/a n/a 640 680 720 Dates are taken from Date (CE) in S21 B2a n/a Radius 3 Shotgun;OtherCapture minus ds 979684 n/a n/a n/a n/a SAMEA13300913 María C. Ávila-Arcos Villa-IslasScience2043 AM1CV2SS07;AM1CV2SS35;AM1CV2SS035_S4 +E7_CdV_b F CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 n/a n/a n/a n/a n/a n/a n/a Dates are taken from Date (CE) in S22 A2+(64) n/a Tooth 3 Shotgun;ArborComplete minus ds 209773420 n/a n/a n/a n/a SAMEA13300914 María C. Ávila-Arcos Villa-IslasScience2044 AM1CV2SS08;AM1CV2SS24;AM1CV2SS024_S5 +E8_CdV_b M CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 contextual n/a n/a n/a 540 600 660 Dates are taken from Date (CE) in S23 B2 Q1a2a1a1-M3 Phalanx 3 Shotgun;ArborComplete minus ds 981253241 0.003141 0.002511989796 hapCon v0.4a1 Estimated from confidence interval SAMEA13300915 María C. Ávila-Arcos Villa-IslasScience2045 AM1CV2SS09;AM1CV2SS28;AM1CV2SS028_S1 +E9_CdV_b M CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 contextual n/a n/a n/a 770 875 980 Dates are taken from Date (CE) in S24 n/a n/a Tooth 3 Shotgun;OtherCapture minus ds 43771 n/a n/a n/a n/a n/a María C. Ávila-Arcos Villa-IslasScience2046 AM1CV2SS10;AM1CV2SS34;AM1CV2SS034_S6 +E10_CdV_b U CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 n/a n/a n/a n/a n/a n/a n/a Dates are taken from Date (CE) in S25 C1b7 n/a Tooth 3 Shotgun;OtherCapture minus ds 3306344 n/a n/a n/a n/a SAMEA13300916 María C. Ávila-Arcos Villa-IslasScience2047 AM1CV2SS20;AM1CV2SS33;AM1CV2SS33_S3 +E11_CdV_b U CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 n/a n/a n/a n/a n/a n/a n/a Dates are taken from Date (CE) in S26 B2 n/a Patella 3 Shotgun;OtherCapture minus ds 5742526 n/a n/a n/a n/a SAMEA13300917 María C. Ávila-Arcos Villa-IslasScience2048 AM1CV2SS12;AM1CV2SS38;AM1CV2SS38_S +E14_CdV_b U CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 contextual n/a n/a n/a 660 720 780 Dates are taken from Date (CE) in S27 n/a n/a Unidentified long bone 3 Shotgun;OtherCapture minus ds 67274 n/a n/a n/a n/a n/a María C. Ávila-Arcos Villa-IslasScience2049 AM1CV2SS21;AM1CV2SS31;AM1CV2SS31_S2 +E15_CdV_b F CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 n/a n/a n/a n/a n/a n/a n/a Dates are taken from Date (CE) in S28 n/a n/a Tooth 3 Shotgun;OtherCapture minus ds 69766 n/a n/a n/a n/a n/a María C. Ávila-Arcos Villa-IslasScience2050 AM1CV2SS14;AM1CV2SS36;AM1CV2SS36_S4 +E17_CdV_b U CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 n/a n/a n/a n/a n/a n/a n/a Dates are taken from Date (CE) in S29 n/a n/a Unidentified long bone 4 Shotgun;OtherCapture minus ds 412567 n/a n/a n/a n/a n/a María C. Ávila-Arcos Villa-IslasScience2051 AM1CV2SS15;AM1CV2SS16;AM1CV2SS37;AM1CV2SS37_S5 +E18_CdV_b M CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 n/a n/a n/a n/a n/a n/a n/a Dates are taken from Date (CE) in S30 n/a n/a Tooth 3 Shotgun;OtherCapture minus ds 362670 n/a n/a n/a n/a n/a María C. Ávila-Arcos Villa-IslasScience2052 AM1CV2SS17;AM1CV2SS41;AM1CV2SS41_S7 +E19_CdV_b F CañadadelaVirgen;CentralMexico Mexico Guanajuato Cañada de la Virgen 21.14782 101.18942 contextual n/a n/a n/a 660 720 780 Dates are taken from Date (CE) in S31 D1m n/a Tooth 3 Shotgun;ArborComplete minus ds 237303654 n/a n/a n/a n/a SAMEA13300919 María C. Ávila-Arcos Villa-IslasScience2053 AM1CV2SS18;AM1CV2SS25;AM1CV2SS25_S1 +E1A_Mich_b M LaMina;CentralMexico;Michoacan Mexico Michoacán La Mina 19.89428 -100.98332 contextual n/a n/a n/a 647 736 825 Dates are taken from Date (CE) in S32 A2j1 n/a Tooth 2 Shotgun;OtherCapture minus ds 70945 n/a n/a n/a n/a SAMEA13300907 María C. Ávila-Arcos Villa-IslasScience2054 E1A_S24;E1AMichmti15 +E2_Mich_b U LaMina;CentralMexico;Michoacan Mexico Michoacán La Mina 19.89428 -100.98332 contextual n/a n/a n/a 647 736 825 Dates are taken from Date (CE) in S33 D1i2 n/a Tooth 3 Shotgun;ArborComplete minus ds 65056680 n/a n/a n/a n/a SAMEA13300908 María C. Ávila-Arcos Villa-IslasScience2055 E2_S2;E2_S5;E2-WGC +E4_Mich_b U LaMina;CentralMexico;Michoacan Mexico Michoacán La Mina 19.89428 -100.98332 contextual n/a n/a n/a 647 736 825 Dates are taken from Date (CE) in S34 D1i2 n/a Tooth 3 Shotgun;ArborComplete minus ds 102377778 n/a n/a n/a n/a SAMEA13300909 María C. Ávila-Arcos Villa-IslasScience2056 E4A_S3;E4A_S20;E5A-WGC +M1_Mich U Tanhuato;CentralMexico;Michoacan Mexico Michoacán Tanhuato 20.28416 -102.33004 n/a n/a n/a n/a n/a n/a n/a Dates are taken from Date (CE) in S35 A2f2 n/a Tooth 3 Shotgun;OtherCapture minus ds 187444 n/a n/a n/a n/a SAMEA13300910 María C. Ávila-Arcos Villa-IslasScience2057 M1_S21;M1mt_S9;M1-mt_S17 +M2_Mich_b U Zaragoza;CentralMexico;Michoacan Mexico Michoacán Zaragoza 20.34079 -101.96689 contextual n/a n/a n/a 680 825 970 Dates are taken from Date (CE) in S36 C n/a Tooth 3 Shotgun;OtherCapture minus ds 351610 n/a n/a n/a n/a SAMEA13300911 María C. Ávila-Arcos Villa-IslasScience2058 M2_S23;M2-mt_S3;M2-MT_S1 +M3_Mich_b U Zaragoza;CentralMexico;Michoacan Mexico Michoacán Zaragoza 20.34079 -101.96689 contextual n/a n/a n/a 680 825 970 Dates are taken from Date (CE) in S37 n/a n/a Tooth 2 Shotgun;OtherCapture minus ds 17890 n/a n/a n/a n/a n/a María C. Ávila-Arcos Villa-IslasScience2059 M3_S24;M3-mt_S18 +M4_Mich_b U Zaragoza;CentralMexico;Michoacan Mexico Michoacán Zaragoza 20.34079 -101.96689 contextual n/a n/a n/a 680 825 970 Dates are taken from Date (CE) in S38 n/a n/a Tooth 2 Shotgun;OtherCapture minus ds 203229 n/a n/a n/a n/a n/a María C. Ávila-Arcos Villa-IslasScience2060 M4_S20;M4_S7 +M5_Mich_b U Zaragoza;CentralMexico;Michoacan Mexico Michoacán Zaragoza 20.34079 -101.96689 contextual n/a n/a n/a 680 825 970 Dates are taken from Date (CE) in S39 n/a n/a Tooth 2 Shotgun;OtherCapture minus ds 38639 n/a n/a n/a n/a n/a María C. Ávila-Arcos Villa-IslasScience2061 M5_S26;M5-mt_S4