「PCR primers cp rbcL」の版間の差分

提供: 広島大学デジタル博物館
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+
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= [[PCR_primers|PCR primers]] =
 
= [[PCR_primers|PCR primers]] =
 
== chloroplast ==
 
== chloroplast ==
=== rbcL (atpB-rbcL-trnR-zfpA) ===
+
=== [[rbcL|''rbcL'' (''atpB''-''rbcL''-''trnR''-''zfpA'')]] ===
 
{| class="wikitable" style="width:90%; margin:0 2em 0 2em; background-color:#d1d1a5; text-align:left"
 
{| class="wikitable" style="width:90%; margin:0 2em 0 2em; background-color:#d1d1a5; text-align:left"
|+ style="text-align:left" | Table. Sequences (5’–3’) of synthetic primers used for PCR amplification and sequencing of the rbcL gene.  The primer numbers from 5’ end correspond to rough positions in the sequence of ''Marchantia polymorpha'' (Ohyama et al. 1986).
+
|+ style="text-align:left" | Table. Sequences (5’–3’) of synthetic primers used for PCR amplification and sequencing of the ''rbcL'' gene.  The primer numbers from 5’ end correspond to rough positions in the sequence of ''Marchantia polymorpha'' ([http://www.nature.com/nature/journal/v322/n6079/abs/322572a0.html Ohyama et al. 1986]).
 
|-
 
|-
 
| Analyzed region
 
| Analyzed region
14行目: 14行目:
 
| For
 
| For
 
|-
 
|-
| rbcL
+
| ''atpB''-''rbcL''
 
| Forward
 
| Forward
 
| atpB1011
 
| atpB1011
21行目: 21行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''atpB''-''rbcL''
 
| Forward
 
| Forward
 
| atpB370
 
| atpB370
28行目: 28行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''atpB''-''rbcL''
 
| Forward
 
| Forward
 
| atbB175R
 
| atbB175R
 
| TGTTGAACTT CACAAGTAAC A
 
| TGTTGAACTT CACAAGTAAC A
| Manhart (1994)
+
| [[Manhart_1994|Manhart (1994)]]
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL−130
 
| rbcL−130
 
| ACAATGATAC TGTTTGTTAT AG
 
| ACAATGATAC TGTTTGTTAT AG
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL−73
 
| rbcL−73
49行目: 49行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 +
| Forward
 +
| rbcL−53h
 +
| TCGAGTAGAC CTTATCCTTG C
 +
| [[Inoue_Tsubota_2014|Inoue & Tsubota (2014)]]
 +
| Bryopytes
 +
|-
 +
| ''rbcL''
 
| Forward
 
| Forward
| rbcL-26Fmas *
+
| rbcL-26Fmas<ref name="chu1">The PCR primer "rbcL-26Fmas" of Table 1 in [[Masuzaki_Shimamura_Furuki_Tsubota_Yamaguchi_Haji_Deguchi_2010|Masuzaki et al. (2010a)]] was published with the sequences based on mistranscription of the sequences data, which should be rectified as "5'-TATTAATTGA TTTGTAGGGA GG-3'".  In avoiding future confusion we gave a new name to the sequences (rbcL-26Fh: 5'-TATTAATTGA TTTGTAGGGA GG-3').</ref>
 
| AAGTCCCTCC CTACGAATCAA
 
| AAGTCCCTCC CTACGAATCAA
 
| [[Masuzaki_Shimamura_Furuki_Tsubota_Yamaguchi_Haji_Deguchi_2010|Masuzaki et al. (2010)]]
 
| [[Masuzaki_Shimamura_Furuki_Tsubota_Yamaguchi_Haji_Deguchi_2010|Masuzaki et al. (2010)]]
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
| rbcL-26Fh
+
| rbcL-26Fh<ref name="chu1" />
| TATTAATTGA TTTGTAGGGA GG *
+
| TATTAATTGA TTTGTAGGGA GG
 
| [[Masuzaki_et_al_2011|Masuzaki et al. (2011)]]
 
| [[Masuzaki_et_al_2011|Masuzaki et al. (2011)]]
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| HrL1
 
| HrL1
 
| ATGTCACCAC AAACGGAGAC TAAAGCAGG
 
| ATGTCACCAC AAACGGAGAC TAAAGCAGG
 
| [[Masuzaki_Shimamura_Furuki_Tsubota_Yamaguchi_Haji_Deguchi_2010|Masuzaki et al. (2010)]]
 
| [[Masuzaki_Shimamura_Furuki_Tsubota_Yamaguchi_Haji_Deguchi_2010|Masuzaki et al. (2010)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL7
 
| rbcL7
 
| TGGATTTAAA GCTGGTGTTA AAG
 
| TGGATTTAAA GCTGGTGTTA AAG
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL39Fmas
 
| rbcL39Fmas
84行目: 91行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL111Fmas
 
| rbcL111Fmas
91行目: 98行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL152
 
| rbcL152
98行目: 105行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL218h
 
| rbcL218h
 
| GACGATGCTA TGATCTCGAA GC
 
| GACGATGCTA TGATCTCGAA GC
| Tsubota et al. (2000)
+
| [[Tsubota_Nakao_Yamaguchi_Seki_Deguchi_2000|Tsubota et al. (2000)]]
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL256
 
| rbcL256
 
| GCTATGATCT TGAAGCAGTT CCTGGAGAAG
 
| GCTATGATCT TGAAGCAGTT CCTGGAGAAG
| Tsubota et al. (2000)
+
| [[Tsubota_Nakao_Yamaguchi_Seki_Deguchi_2000|Tsubota et al. (2000)]]
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 +
| Forward
 +
| rbcL333mas
 +
| AATCAATATA TTGCTTATGT
 +
| [[Masuzaki_et_al_2011|Masuzaki et al. (2011)]]
 +
| Bryopytes
 +
|-
 +
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL265
 
| rbcL265
119行目: 133行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
| Forward
 
| rbcL333mas
 
| AATCAATATA TTGCTTATGT
 
| [[Masuzaki_et_al_2011|Masuzaki et al. (2011)]]
 
| Bryopytes
 
|-
 
| rbcL
 
 
| Forward
 
| Forward
 
| rbcL557
 
| rbcL557
 
| GGTAGAGCTG TATATGAATG TCTTCGTGGT GG
 
| GGTAGAGCTG TATATGAATG TCTTCGTGGT GG
| Tsubota et al. (2000)
+
| [[Tsubota_Nakao_Yamaguchi_Seki_Deguchi_2000|Tsubota et al. (2000)]]
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL549
 
| rbcL549
 
| TGTCTTCGTG GTGGAC
 
| TGTCTTCGTG GTGGAC
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL634Fmas
 
| rbcL634Fmas
147行目: 154行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL862
 
| rbcL862
 
| CAATGCATGC AGTTATTGAC
 
| CAATGCATGC AGTTATTGAC
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL919G
 
| rbcL919G
 
| CATGGTATGC ATTTCCGTGT A
 
| CATGGTATGC ATTTCCGTGT A
| Tsubota et al. (2001)
+
| [[Tsubota_Akiyama_Yamaguchi_Deguchi_2001|Tsubota et al. (2001)]]
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL920Fmas
 
| rbcL920Fmas
168行目: 175行目:
 
| Bryopytes (Liverworts)
 
| Bryopytes (Liverworts)
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL921G
 
| rbcL921G
 
| GGTATGCATT TCCGTGTATT AGC
 
| GGTATGCATT TCCGTGTATT AGC
| Tsubota et al. (2001)
+
| [[Tsubota_Akiyama_Yamaguchi_Deguchi_2001|Tsubota et al. (2001)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL968G
 
| rbcL968G
 
| GAGATCATAT TCACGCTGGT AC
 
| GAGATCATAT TCACGCTGGT AC
| Tsubota et al. (2001)
+
| [[Tsubota_Akiyama_Yamaguchi_Deguchi_2001|Tsubota et al. (2001)]]
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL1117
 
| rbcL1117
 
| GGTATTCATG TTTGGC
 
| GGTATTCATG TTTGGC
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL1220
 
| rbcL1220
196行目: 203行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Forward
 
| Forward
 
| rbcL1276
 
| rbcL1276
210行目: 217行目:
 
|
 
|
 
|-
 
|-
| rbcL
+
| ''rbcL''-''trnR''-''zfpA''
 
| Reverse
 
| Reverse
 
| zfpA546R
 
| zfpA546R
 
| ATGATATCCA CATTCTTCAC A
 
| ATGATATCCA CATTCTTCAC A
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''-''trnR''
 
| Reverse
 
| Reverse
 
| trnRn
 
| trnRn
 
| GGGTTAGAAG GGATTCGAAC CCTTGAC
 
| GGGTTAGAAG GGATTCGAAC CCTTGAC
| Manhart (1994); [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
+
| [[Manhart_1994|Manhart (1994)]]; [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''-''trnR''
 
| Reverse
 
| Reverse
 
| trnR66R
 
| trnR66R
231行目: 238行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''-''trnR''
 
| Reverse
 
| Reverse
 
| trnR24R
 
| trnR24R
238行目: 245行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Reverse
 
| Reverse
 
| rbcL1346hR
 
| rbcL1346hR
245行目: 252行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Reverse
 
| Reverse
 
| rbcL1301RL
 
| rbcL1301RL
 
| CTTCATTACG TGCTTGTACA CAAGCTTCTA
 
| CTTCATTACG TGCTTGTACA CAAGCTTCTA
 
| [[Inoue_et_al_2011|Inoue et al. (2011)]]
 
| [[Inoue_et_al_2011|Inoue et al. (2011)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Reverse
 
| Reverse
 
| rbcL1145R
 
| rbcL1145R
 
| TTAATGCTGG CATATGCCAA AC
 
| TTAATGCTGG CATATGCCAA AC
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Reverse
 
| Reverse
 
| rbcL1098R
 
| rbcL1098R
266行目: 273行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Reverse
 
| Reverse
 
| ArbcL-MR
 
| ArbcL-MR
273行目: 280行目:
 
| Ferns, Bryopytes
 
| Ferns, Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Reverse
 
| Reverse
 
| rbcL989R
 
| rbcL989R
 
| CTACGGTACC AGCGTGAATA TGGTCTCCAC CGG
 
| CTACGGTACC AGCGTGAATA TGGTCTCCAC CGG
| Tsubota et al. (2000)
+
| [[Tsubota_Nakao_Yamaguchi_Seki_Deguchi_2000|Tsubota et al. (2000)]]
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Reverse
 
| Reverse
 
| rbcL957R
 
| rbcL957R
287行目: 294行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
| Forward
+
| Reverse
| hRl911r
+
| HrL911R<ref name="chu4">Masuzaki et al.(2011)のHrL911Rの配列は5'-CGTGCAATGC ATGCAGTTAT TGATAGACA-3'となっているが,実際に用いたものはHrL911Rtmの配列.</ref>
 
| CGTGCAATGC ATGCAGTTAT TGATAGACA
 
| CGTGCAATGC ATGCAGTTAT TGATAGACA
 
| [[Masuzaki_et_al_2011|Masuzaki et al. (2011)]]
 
| [[Masuzaki_et_al_2011|Masuzaki et al. (2011)]]
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 +
| Reverse
 +
| HrL911Rtm<ref name="chu6">Masuzaki et al.(2011)の配列を訂正</ref>
 +
| TGTCTATCAA TAACTGCATG CATTGCACG
 +
| [[Phan_Nakahara-Tsubota_Inoue_Tsubota_2021|Phan et al. (2021)]]
 +
| Bryopytes, Vascular plants (''Dysphania'' etc.)
 +
|-
 +
| ''rbcL''
 
| Reverse
 
| Reverse
 
| rbcL804hR
 
| rbcL804hR
 
| TGCAGTAAAA CCACCTG
 
| TGCAGTAAAA CCACCTG
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
| Forward
+
| Reverse
 
| rbcL650Rmas
 
| rbcL650Rmas
 
| CGATCTCTCC AACGCA
 
| CGATCTCTCC AACGCA
 
| [[Masuzaki_Shimamura_Furuki_Tsubota_Yamaguchi_Haji_Deguchi_2010|Masuzaki et al. (2010)]]
 
| [[Masuzaki_Shimamura_Furuki_Tsubota_Yamaguchi_Haji_Deguchi_2010|Masuzaki et al. (2010)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Reverse
 
| Reverse
| rbcL600R
+
| rbcL600R<ref name="chu2">Masuzaki et al. (2011)のrbcL600Rの配列は5'-CGTGGTGGAC TTGATTTCAC-3'となっているが,誤り.</ref>
 
| GTGAAATCAA GTCCACCACG
 
| GTGAAATCAA GTCCACCACG
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
 
| [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|Tsubota et al. (1999)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
| Forward
+
| Reverse
 
| rbcL302Rmas
 
| rbcL302Rmas
 
| ACATAAGCAA TATATTGATT
 
| ACATAAGCAA TATATTGATT
322行目: 336行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Reverse
 
| Reverse
| HrL260R **
+
| HrL260R<ref name="chu3">Inoue et al. (2011)では,Masuzaki et al. (2010)が初出となっているが,実際にはInoue et al. (2011)が初出.</ref><ref name="chu5">The first appearance of this primer was in Table 1 of Inoue et al. (2011), and the footnote in Inoue et al. (2011) should be requested to make the corrections as the following: correct: “(published here)” and incorrect: “published by Masuzaki et al. (2010)”.</ref>
 
| ATATCATAGC ATCGACCTTT GTAACGATC
 
| ATATCATAGC ATCGACCTTT GTAACGATC
 
| [[Inoue_et_al_2011|Inoue et al. (2011)]]
 
| [[Inoue_et_al_2011|Inoue et al. (2011)]]
| Bryopytes
+
| Bryopytes, Vascular plants (''Sisymbrium'' etc.)
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Reverse
 
| Reverse
 
| rbcL270R
 
| rbcL270R
336行目: 350行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
 
| Reverse
 
| Reverse
 
| rbcL199R
 
| rbcL199R
343行目: 357行目:
 
| Bryopytes
 
| Bryopytes
 
|-
 
|-
| rbcL
+
| ''rbcL''
| Forward
+
| Reverse
 
| rbcL128Rmas
 
| rbcL128Rmas
 
| GTCATACGAA ATGCTGC
 
| GTCATACGAA ATGCTGC
351行目: 365行目:
 
|}
 
|}
  
* The PCR primer "rbcL-26Fmas" of Table 1 in [[Masuzaki_Shimamura_Furuki_Tsubota_Yamaguchi_Haji_Deguchi_2010|Masuzaki et al. (2010a)]] was published with the sequences based on mistranscription of the sequences data, which should be rectified as "5'-TATTAATTGA TTTGTAGGGA GG-3'".  In avoiding future confusion we gave a new name to the sequences (rbcL-26Fh: 5'-TATTAATTGA TTTGTAGGGA GG-3').
+
== 脚注 ==
 
+
{{Reflist|2}}
** Inoue et al. (2011)では,Masuzaki et al. (2010)が初出となっているが,実際にはInoue et al. (2011)が初出.
 
  
== References ==
+
=[[テンプレート:PCR_primers_References|References]]=
* Masuzaki, H., Shimamura, M., Furuki, T., Tsubota, H., Yamaguchi, T., A. M., Haji Mohamed & Deguchi, H.  2010.  Systematic position of the enigmatic liverwort ''Mizutania'' (Mizutaniaceae, Marchantiophyta) inferred from molecular phylogenetic analyses.  Taxon 59(2): 448-458.
+
{{PCR_primers_References}}
* Tsubota, H., N. Nakao, T. Arikawa, T. Yamaguchi, M. Higuchi, H. Deguchi & T. Seki.  1999.  A preliminary phylogeny of Hypnales (Musci) as inferred from chloroplast ''rbc''L sequence data.  Bryol. Res. 7: 233-248.  [[Tsubota_Nakao_Arikawa_Yamaguchi_Higuchi_Deguchi_Seki_1999|pdf]]
 
* Tsubota, H., N. Nakao, T. Yamaguchi, T. Seki & H. Deguchi.  2000.  Preliminary phylogenetic relationships of the genus ''Brotherella'' and its allied genera (Hypnales, Musci) based on chloroplast ''rbc''L sequence data.  J. Hattori Bot. Lab. 88: 79-99.  [http://sciencelinks.jp/j-east/article/200021/000020002100A0795866.php Abstract]
 
* Tsubota, H., H. Akiyama, T. Yamaguchi & H. Deguchi.  2001.  Molecular phylogeny of the Sematophyllaceae (Hypnales, Musci) based on chloroplast ''rbc''L sequences.  J. Hattori Bot. Lab. 90: 221-240.
 
  
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2022年5月3日 (火) 15:37時点における版

広島大学 > デジタル自然史博物館 > 植物 > コケ植物(蘚苔類) > 情報

PCR primers

chloroplast

rbcL (atpB-rbcL-trnR-zfpA)

Table. Sequences (5’–3’) of synthetic primers used for PCR amplification and sequencing of the rbcL gene. The primer numbers from 5’ end correspond to rough positions in the sequence of Marchantia polymorpha (Ohyama et al. 1986).
Analyzed region Forward / Reverse Primer name Sequence (5'–3') References For
atpB-rbcL Forward atpB1011 GATCTACTAC TTTAATTCCT GT Tsubota et al. (1999) Bryopytes
atpB-rbcL Forward atpB370 AGTTGAATCT AAAGGATCTA C Tsubota et al. (1999) Bryopytes
atpB-rbcL Forward atbB175R TGTTGAACTT CACAAGTAAC A Manhart (1994) Bryopytes
rbcL Forward rbcL−130 ACAATGATAC TGTTTGTTAT AG Tsubota et al. (1999) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Forward rbcL−73 ATACCAAAGA TGTTTTTTTA TAAG Tsubota et al. (1999) Bryopytes
rbcL Forward rbcL−53h TCGAGTAGAC CTTATCCTTG C Inoue & Tsubota (2014) Bryopytes
rbcL Forward rbcL-26Fmas[1] AAGTCCCTCC CTACGAATCAA Masuzaki et al. (2010) Bryopytes
rbcL Forward rbcL-26Fh[1] TATTAATTGA TTTGTAGGGA GG Masuzaki et al. (2011) Bryopytes
rbcL Forward HrL1 ATGTCACCAC AAACGGAGAC TAAAGCAGG Masuzaki et al. (2010) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Forward rbcL7 TGGATTTAAA GCTGGTGTTA AAG Tsubota et al. (1999) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Forward rbcL39Fmas AAAGCTGGTG TTAAAGATTA Masuzaki et al. (2010) Bryopytes
rbcL Forward rbcL111Fmas GCAGCATTTC GTATGAC Masuzaki et al. (2010) Bryopytes
rbcL Forward rbcL152 GAATCCTCCA CTGGTACATG Tsubota et al. (1999) Bryopytes
rbcL Forward rbcL218h GACGATGCTA TGATCTCGAA GC Tsubota et al. (2000) Bryopytes
rbcL Forward rbcL256 GCTATGATCT TGAAGCAGTT CCTGGAGAAG Tsubota et al. (2000) Bryopytes
rbcL Forward rbcL333mas AATCAATATA TTGCTTATGT Masuzaki et al. (2011) Bryopytes
rbcL Forward rbcL265 ATTGCTTATG TTGCTTATCC Tsubota et al. (1999) Bryopytes
rbcL Forward rbcL557 GGTAGAGCTG TATATGAATG TCTTCGTGGT GG Tsubota et al. (2000) Bryopytes
rbcL Forward rbcL549 TGTCTTCGTG GTGGAC Tsubota et al. (1999) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Forward rbcL634Fmas ATGCGTTGGA GAGA Masuzaki et al. (2010) Bryopytes
rbcL Forward rbcL862 CAATGCATGC AGTTATTGAC Tsubota et al. (1999) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Forward rbcL919G CATGGTATGC ATTTCCGTGT A Tsubota et al. (2001) Bryopytes
rbcL Forward rbcL920Fmas CATGGTATGC ATTTCCGTGT Masuzaki et al. (2010) Bryopytes (Liverworts)
rbcL Forward rbcL921G GGTATGCATT TCCGTGTATT AGC Tsubota et al. (2001) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Forward rbcL968G GAGATCATAT TCACGCTGGT AC Tsubota et al. (2001) Bryopytes
rbcL Forward rbcL1117 GGTATTCATG TTTGGC Tsubota et al. (1999) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Forward rbcL1220 GGAGCAGTTG CTAATAGAG Tsubota et al. (1999) Bryopytes
rbcL Forward rbcL1276 GGACGTGATC TTGCTCG Tsubota et al. (1999) Bryopytes
rbcL-trnR-zfpA Reverse zfpA546R ATGATATCCA CATTCTTCAC A Tsubota et al. (1999) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL-trnR Reverse trnRn GGGTTAGAAG GGATTCGAAC CCTTGAC Manhart (1994); Tsubota et al. (1999) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL-trnR Reverse trnR66R GAAGGGATTC GAACCCTTG Tsubota et al. (1999) Bryopytes
rbcL-trnR Reverse trnR24R CTCTAATCCA CTGAGCTACA Tsubota et al. (1999) Bryopytes
rbcL Reverse rbcL1346hR GCAGCTAATT CAGGACTCC Tsubota et al. (1999) Bryopytes
rbcL Reverse rbcL1301RL CTTCATTACG TGCTTGTACA CAAGCTTCTA Inoue et al. (2011) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Reverse rbcL1145R TTAATGCTGG CATATGCCAA AC Tsubota et al. (1999) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Reverse rbcL1098R AACACCTGGT AAAGAAACC Tsubota et al. (1999) Bryopytes
rbcL Reverse ArbcL-MR TGACGTTCTC CTTCAAGTTT ACCTACTAC Murakami et al. (1999) Ferns, Bryopytes
rbcL Reverse rbcL989R CTACGGTACC AGCGTGAATA TGGTCTCCAC CGG Tsubota et al. (2000) Bryopytes
rbcL Reverse rbcL957R GCGTGAATAT GGTCTCCACC Tsubota et al. (1999) Bryopytes
rbcL Reverse HrL911R[2] CGTGCAATGC ATGCAGTTAT TGATAGACA Masuzaki et al. (2011) Bryopytes
rbcL Reverse HrL911Rtm[3] TGTCTATCAA TAACTGCATG CATTGCACG Phan et al. (2021) Bryopytes, Vascular plants (Dysphania etc.)
rbcL Reverse rbcL804hR TGCAGTAAAA CCACCTG Tsubota et al. (1999) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Reverse rbcL650Rmas CGATCTCTCC AACGCA Masuzaki et al. (2010) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Reverse rbcL600R[4] GTGAAATCAA GTCCACCACG Tsubota et al. (1999) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Reverse rbcL302Rmas ACATAAGCAA TATATTGATT Masuzaki et al. (2010) Bryopytes
rbcL Reverse HrL260R[5][6] ATATCATAGC ATCGACCTTT GTAACGATC Inoue et al. (2011) Bryopytes, Vascular plants (Sisymbrium etc.)
rbcL Reverse rbcL270R GCAATATATT GATTTTCTTC TCCAG Tsubota et al. (1999) Bryopytes
rbcL Reverse rbcL199R GGTAAGTCCA TCAGTCCAAA C Tsubota et al. (1999) Bryopytes
rbcL Reverse rbcL128Rmas GTCATACGAA ATGCTGC Masuzaki et al. (2010) Bryopytes

脚注

  1. 1.0 1.1 The PCR primer "rbcL-26Fmas" of Table 1 in Masuzaki et al. (2010a) was published with the sequences based on mistranscription of the sequences data, which should be rectified as "5'-TATTAATTGA TTTGTAGGGA GG-3'". In avoiding future confusion we gave a new name to the sequences (rbcL-26Fh: 5'-TATTAATTGA TTTGTAGGGA GG-3').
  2. Masuzaki et al.(2011)のHrL911Rの配列は5'-CGTGCAATGC ATGCAGTTAT TGATAGACA-3'となっているが,実際に用いたものはHrL911Rtmの配列.
  3. Masuzaki et al.(2011)の配列を訂正
  4. Masuzaki et al. (2011)のrbcL600Rの配列は5'-CGTGGTGGAC TTGATTTCAC-3'となっているが,誤り.
  5. Inoue et al. (2011)では,Masuzaki et al. (2010)が初出となっているが,実際にはInoue et al. (2011)が初出.
  6. The first appearance of this primer was in Table 1 of Inoue et al. (2011), and the footnote in Inoue et al. (2011) should be requested to make the corrections as the following: correct: “(published here)” and incorrect: “published by Masuzaki et al. (2010)”.

References

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