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Table 7 Sequence of primers/adaptors used for ITS, AFLP and SSRs

From: Genetic species identification and population structure of Halophila(Hydrocharitaceae) from the Western Pacific to the Eastern Indian Ocean

Sequence of primers used for ITS Name of primer Ann. temp. (°C) Motive Length of PCR product (bp) Source
5′-CCTTATCATTTAGAGGAAGGAG-3′ ITS5a 52   700 [67]
5′-TCCTCCGCTTATTGATATGC-3′ ITS4    [68]
Sequence of adaptors and primers used for AFLP      
5′-CTCGTAGACTGCGTACC-3′ EcoRI adaptors     [69]
5′-AATTGGTACGCAGTCTAC-3′   
5′-GACGATGAGTCCTGAG-3′ MseI adaptors     
5′-TACTCAGGACTCAT-3′   
5′-GACTGCGTACCAATTCA-3′ (EcoRI + A) Pre-selective primers     
5′-GATGAGTCCTGAGTAAA-3′ (MseI + A)   
EcoRI + ACA/MseI + ATC (set1) Final amplification    50-500  
EcoRI + ACC/MseI + ATC (set2)    
EcoRI + ACA/MseI + ACA (set3)    
EcoRI + ACC/MseI + ACA (set4)    
Sequence of primers used for SSRs      
5′-GAATGGGAAGGTGAAAGAG-3′ HO5 59 (AT)n(GA)n 260-296 [70]
5′-CACGGCACTGTTCATCTAC-3′
5′-ATAACCAAAGCCTCCCAAGC-3′ HO8 52 (GA)n 156-186  
5′-AAATATCAAACGCCCCTCAC-3′
5′-CAACTAACCAAACGAGAAAC-3′ HO36 59 (GA)nGC(GA)n 220-240  
5′-AACCTTGACACCTGCTAATA-3′
5′-ATCGAACCCAATAGACACCAG-3′ HO48 59 (GA)n 196-246  
5′-CAGGCAACTTAGCAAGAAACT-3′
5′-AGATAAGTTTCACTCCTGTG-3′ HO51 46 (GA)n 141-175  
5′-ACCAGAACCAATCAAGAT-3′
  1. There are four primer pairs used for final amplification in AFLP and five primer pairs used to amplify five loci in SSRs. Ann. temp. Annealing temperature; bp, base pairs.