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Table 3 Targeted regions, primer sequences and approximate product length (bp) of PCR for primer pairs used to amplify six cpDNA regions of Norway spruce

From: Population dynamics and genetic changes of Picea abies in the South Carpathians revealed by pollen and ancient DNA analyses

Region (short name)

cpDNA region

Primer

Sequence (5' - 3')

Position in cpDNA of Pinus thunbergiiNC_001631

Position in cpDNA of Picea sitchensisNC_011152

Fragment Length in P. abies(bp)

ndhCp-ndhKp (CK)

pseudogene

ndhK-for1

CACTTCAGTTCTTGTTGTTCC

66530→66550

66774→66794

136 bp

  

ndhC_ndhK-rev

TCGCCACAGAACCAACGATG

66666→66647

66910→66891

 

psbM-trnD (MD)

intergene spacer

psbM_trnD-f1

GTTCGAGTAACGGAATCTAAC

28004→28024

27925→27945

200 bp

  

psbM_trnD-rev1

CGAACGTCTTCTGGAGTAGC

28204→28185

28124→28105

 

Pt3024, ORF46b* (B)

microsatellite

B-for

GCTTATGGCATTGTTGATGT

30166→30185

30701→30720

212-216 bp

  

B-rev

TGGGCATTCTAGCTGTATTG

30387→30368

30941→30922

 

Pt15169, ORF84* (D)

microsatellite

D-for

CTTGGATGGAATAGCAGCC

15169→15187

15208→15226

124 bp

  

D-rev

GGAAGCGCATTAAGGTCATTA

15286→15266

15327→15307

 

trnT-trnL (TL)

intergene spacer

trnT_trnL-sp-f1

CTGAGCTAAGCAGGCTCAATGG

69189→69168

69573→69552

251 bp

  

trnT_trnL-sp-brev

GCATGTTATTATCCTCCCCTAG

68945→68967

69323→69344

 

trnL (Li)

Intron

trnL-intron-f2

GAACGCTCTATTTACACC

68497→68480

68884→68867

237 bp

  

trnL-intron-rev

ACACGTAGAATTGGACTCTATC

68261→68282

68648→68669

 

trnL-trnF (LF)

Intergene spacer

Aa_trnLF-for

GGTTCAAGTCCCTCTATCCC

68198→68179

?

186 bp

  

Aa_trnLF-rev

ACTGATCAACTCAACTTGTCATAAGATGG

68014→68042

68400→68428

 

matK-trnK (K2i)

intron

trnK2i-f1

GCCCTCGTTCATGAGAATAACC

3281→3302

3368→3389

204 bp

  

trnK2i-r1

CATGAGTCAGGAGAGCGATTGG

3477→3456

3573→3552

 
  1. * cpDNA region names from Parducci et al. (2005); primers B and D are from Parducci et al. (2005); primers CK, MD, TL, Li, LF and K2i were designed specifically for this study