Research Article
Sequence Analysis of SSR-Flanking Regions Identifies Genome Affinities between Pasture Grass Fungal Endophyte Taxa
Table 2
Characteristics of EST-derived SSR loci used for phylogenetic analysis of endophyte isolates.
| | EST-SSR locus | | NCESTA1AB04 | NCESTA1FH03 | NCESTA1GA07 | NLESTA1GF09 | NLESTA1NF04 |
| Product size (bp) | 241–257 | 217–252 | 181–206 | 364–385 | 242–265 | Number of indels | 5 | 7 | 3 | 6 | 2 | Number of unique SSR array variants | 2 | 13 | 11 | 1 | 19 | Number of unique gene variants | 14 | 13 | 13 | 11 | 15 | Composition of products | coding + 5′-UTR | unknown | intron + unknown | coding + intron | unknown | Length of unit for phylogenetic analysis1 (bp) | 195 | 163 | 116 | 321 | 166 | CDS or exon | 151 | | 46 | 238 | | UTR or intron | 44 | | 70 | 83 | | Number of informative characters1 | 40 | 37 | 23 | 44 | 51 | CDS or exon | 30 | | 10 | 30 | | UTR or intron | 10 | | 13 | 14 | | Percent informative characters1 | 21 | 21 | 20 | 14 | 31 | CDS or exon | 20 | | 22 | 13 | | UTR or intron | 23 | | 19 | 17 | | Number of trees resolved | 3 | 1 | 4 | 2 | 2 |
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1Each indel was coded as a single multistate character.
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