生物種 | 遺伝子領域 |
細菌 | 16S rRNA (1) |
真核生物 | 18S rRNA (2) |
真菌類 (3) | ITS1:生物種によって増幅長のばらつきがITS2領域より大きい ITS2:増幅長のばらつきが小さいとはいえ,長すぎると解析できない。 D2領域:増幅長のばらつきが小さいが、配列多様性がない。 |
動物 | COI (4) |
魚類 | 12S rRNA (5) |
植物 (6) | rbcL: 増幅長が長い(現在短くできないか検討中) matK: PCRによる増幅成功率が低い trnH-psbA: 増幅長がまちまち,長すぎると解析できない。 trnL P6Loop: Taberlet et al., 2007 |
Target | Name | Sequence (5′→3′) | Reference |
All bacteria (16S V4) |
515F | GTGCCAGCMGCCGCGGTAA | Gregory et al., 2011 |
806R | GGACATACHVGGGTWTCTAAT | ||
Pseudomonas (16S) |
Pse435F | ACTTTAAGTTGGGAGGAAGGG | Bergmark et al., 2012. [PDF] |
Pse686R | ACACAGGAAATTCCACCACCC | ||
Burkholderia (16S) |
BKH812F | CCCTAAACGATGTCAACTAGTTG | |
BKH1249R | ACCCTCTGTTCCGACCAT |
Target | Name | Sequence (5′→3′) | Reference |
Eukaryota (18S V9) |
1389F | TTGTACACACCGCCC | Amaral-Zettler et al., 2009 |
1510R | CCTTCYGCAGGTTCACCTAC |
Target | Name | Sequence (5′→3′) | Reference |
Fungi (ITS1) |
ITS1FI2 | GAACCWGCGGARGGATCA | Schmdt et al., 2013 |
ITS2 | GCTGCGTTCTTCATCGATGC | ||
ITS1F | CTTGGTCATTTAGAGGAAGTAA | Bazghaleh et al., 2015 | |
ITS2 | GCTGCGTTCTTCATCGATGC | ||
18S-F | GTAAAAGTCGTAACAAGGTTTC | Findley et al., 2013 | |
5.8S-1R | GTTCAAAGAYTCGATGATTCAC | ||
ITS5 | GGAAGTAAAAGTCGTAACAAGG | Blaalid et al., 2013 | |
ITS2 | GCTGCGTTCTTCATCGATGC | ||
Fungi (ITS2) |
BITS | ACCTGCGGARGGATCA | Bokulich et al., 2013 |
B58S3 | GAGATCCRTTGYTRAAAGTT | ||
5.8S-F | GTGAATCATCGARTCTTTGAAC | Findley et al., 2013 | |
28S1-R | TATGCTTAAGTTCAGCGGGTA | ||
5.8S_Fun | AACTTTYRRCAAYGGATCWCT | Unpublish data | |
ITS4_Fun | AGCCTCCGCTTATTGATATGCTTAART | ||
ITS3 | GCATCGATGAAGAACGCAGC | Blaalid et al., 2013 | |
ITS4 | TCCTCCGCTTATTGATATGC | ||
fITS7 | GAACACAGCGAAATGTGA | Bokulich et al., 2013 | |
ITS4 | TCCTCCGCTTATTGATATGC | ||
gITS7 | GTGAATCATCGARTCTTTG | Bokulich et al., 2013 | |
ITS4 | TCCTCCGCTTATTGATATGC | ||
Fungi (D2) |
LR1 | GCATATCAATAAGCGGAGGA | van Tuinen et al., 1998 |
FLR2 | GTCGTTTAAAGCCATTACGTC | Trouvelot et al., 1999 | |
Glomeromycetes グロモス門 |
FLR4 | TACGTCAACATCCTTAACGAA | Gollotte et al., 2004 |
FLR3 | TTGAAAGGGAAACGATTGAAG |
Target | Name | Sequence (5′→3′) | Reference |
Plants (rbcL) |
rbcLa_F | ATGTCACCACAAACAGAGACTAAAGC | |
rbcLa_R | CTTCTGCTACAAATAAGAATCGATCTC | ||
Plants (matK) |
matK 2.1f | CCTATCCATCTGGAAATCTTAG | |
matK 5r | GTTCTAGCACAAGAAAGTCG | ||
Plants (trnH-psbA) |
trnH | ACTGCCTTGATCCACTTGGC | |
psbA | CGAAGCTCCATCTACAAATGG |
Target | Name | Sequence (5′→3′) | Reference |
Animal (動物) |
LCO1606 | TTAATTGGAGATGATCAAAT | Folmer et al., 1994 [PDF] |
LCO1495 | ACAAATCATAAAGATATTGG | ||
LCO1828 | GGAGCTGGTACAGGTTGAAC | ||
HCO1862 | TGAACTGTTTACCCTCCTTT | ||
HCO2042 | TGATCAGTACTTATTACAGC | ||
HCO2799 | CCACGACGGTACATAGATTATGCTG | ||
HCO2911 | GAAGCTTTAGTGTGTCAACGAGGGG | ||
HCO2192 | TGATTTTTTGGTCACCCTGA | ||
HCO2768 | CAACATTTTTTAGGATTAGC | ||
Mammal (哺乳類) |
MiMammal-U-F | NNNNNNGGGTTGGTAAATTTCGTGCCAGC | Ushio et al., 2016 [PDF] |
MiMammal-U-R | NNNNNNCATAGTGGGGTATCTAATCCCAGTTTG | ||
Mammal (哺乳類) + Elephant (象) |
MiMammal-E-F | NNNNNNGGACTGGTCAATTTCGTGCCAGC | |
MiMammal-E-R | NNNNNNCATAGTGAGGTATCTAATCTCAGTTTG | ||
Mammal (哺乳類) + Bear (熊) |
MiMimmal-B-F | NNNNNNGGGTTGGTTAATTTCGTGCCAGC | |
MiMimmal-B-R | NNNNNNCATAGTGGGGTATCTAATCCCAGTTTG | ||
Fish (魚類) |
MiFish-U-F | NNNNNNGTCGGTAAAACTCGTGCCAGC | Miya et al., 2015. [PDF] |
MiFish-U-R | NNNNNCATAGTGGGGTATCTAATCCCAGTTTG | ||
Fish (魚類) + Elasmobranchs (板鰓類) |
MiFish-E-F | NNNNNNGTTGGTAAATCTCGTGCCAGC | |
MiFish-E-R | NNNNNNCATAGTGGGGTATCTAATCCTAGTTTG | ||
Fish (魚類) + Tuna (マグロ属) |
MiFish-tuna-ND5-F | NNNNNNATGTCCTTCCTCCTTATCGGCTG | |
MiFish-tuna-ND5-R | NNNNNNTTGCCAGTGGCAGCTACGATC | ||
Actinoterygii (条鰭綱) |
CGGTAAAACTCGTGCC | Jarman et al., [PDF] | |
CCGCCAAGTCCTTTGGG | |||
Copepoda (カイアシ類) |
TGTGTGGTGGTAAACGGAG | Bissett et al., 2005 | |
CCGCCGACCTACTCG | |||
Euphausiacea (オキアミ類) |
TCTCAGCGCCTGGCAAGGTGTCA | Jarman et al., 2002 | |
CTCGGGGACGTTTTATCCGGGACGAG | |||
Amphipoda (端脚類) |
AmphNSSf1 | CTGCGGTTAAAAGGCTCGTAGTTGAA | Jarman et al., 2006 |
AmphNSSr1 | ACTGCTTTRAGCACTCTGATTTAC | ||
Cephalopoda (頭足類) |
CephMLSf1 | TGCGGTATTWTAACTGTACT | |
CephMLSr1 | TTATTCCTTRATCACCC | ||
Echinodermata (棘皮動物) |
EchinNSSf1 | GCGTGCTTTTATTAGGA | |
EchinNSSr1 | CGACCATGRTARGCGCATAACG | ||
Gastropoda (腹足綱) |
GastNLSf1 | GCGGYAACGCAAACGAAGT | |
GastNLSr1 | CGAAAWTMACACCGTCTCCG | ||
Isopoda (ワラジムシ類) |
IsopodNSSf1 | TCATGATTYATGGGATGT | |
IsopodNSSr1 | AAGACCTCAGCGCTCGGC | ||
Ostracoda (貝虫) |
OstracodMSSf1 | GTGACAAGAAGACCCTARGAG | |
OstracodMSSr1 | AATCCAACATCGAGGTCA | ||
Thoracica (フジツボ類) |
ThorMSSf1 | TTTAGAGGAACCTGCCC | |
ThorMSSr1 | AGCTGCACCTTTAYTTGAAG |
遺伝子領域 | データベース |
16S | greengene |
12S | MitoFish |
18S | SILVA |
ITS領域 | UNITE |
COI遺伝子 ITS領域 rbcL遺伝子 matK遺伝子 trnH-psbA領域 |
BOLDSYSTEMS |