Table 1.
Characteristics of 22 microsatellite loci and flanking primer pairs developed for Fosterella christophii.
| Locusa,b | Primer sequences (5′–3′) | Repeat motif | Allele size (bp) | Ta (°C) | GenBank accession no. | BLASTX description | %c | SSR location |
| Foc_01 | F: CCTCACTATCGCTCACTACAT | (AG)15 | 146 | 55.2 | KT036677 | PREDICTED: cinnamoyl-CoA reductase 1-like isoform X1 [Phoenix dactylifera] | 80 | 5′UTR |
| R: GTCACGCACACCAACTTC | ||||||||
| Foc_02 | F: GAGGCATTGGGTTTTTCT | (TC)17 | 147 | 55.3 | KT036678 | No match found | — | — |
| R: AGATCTGCGGCTACATCTC | ||||||||
| Foc_03 | F: CCTTATTCCCCAAATCATAAA | (AG)17 | 148 | 55.8 | KT036679 | PREDICTED: tetraspanin-3-like [Musa acuminata subsp. malaccensis] | 80 | 5′UTR |
| R: CTACCTCCTCTTCCTCTTCCT | ||||||||
| Foc_04 | F: GCCATTGAGTTCACCAAGT | (AG)20 | 145 | 55.5 | KT036680 | PREDICTED: tricetin 3′,4′,5′-O-trimethyltransferase [Phoenix dactylifera] | 77 | 3′UTR |
| R: ACAACCCAAGCAATAATAACA | ||||||||
| Foc_05 | F: CTTCTCCTTCTCCTCCATCT | (TCG)7 | 136 | 55.4 | KT036681 | PREDICTED: ribonuclease 2 [Musa acuminata subsp. malaccensis] | 78 | 5′UTR |
| R: AATAGGTCAGAGGATTTGAGC | ||||||||
| Foc_06 | F: CGTCAATCTCAATCCCTTC | (CCT)7 | 138 | 55.3 | KT036682 | PREDICTED: secretory carrier-associated membrane protein 2-like isoform X1 [Elaeis guineensis] | 88 | 5′UTR |
| R: ACCTGCACTACTCAGAGGAA | ||||||||
| Foc_07 | F: TTCATCGCCTCTCGTTTAT | (CTC)7 | 130 | 57.9 | KT036683 | PREDICTED: uncharacterized protein LOC103707719 isoform X2 [Phoenix dactylifera] | 86 | 5′UTR |
| R: CTTCGCCGTACCTCCAGTAG | ||||||||
| Foc_09* | F: TAAAGGGAGAGAGAGGAAGAA | (AGA)8 | 168 | 55.3 | KT581625 | PREDICTED: phosphoribulokinase, chloroplastic [Pyrus ×bretschneideri] | 93 | 5′UTR |
| R: GATGAGCTGCTGCTTCTG | ||||||||
| Foc_10* | F: CTCCTTTTTCCTTTTCCTTTA | (AGG)8 | 140 | 54.6 | KT581626 | Ubiquitin-conjugating enzyme 32 [Theobroma cacao] | 87 | 5′UTR |
| R: CCGTGTTCTTCTTGTTGTACT | ||||||||
| Foc_11* | F: GAGGGTAAATTTCTCTGCTTC | (GAA)9 | 204 | 55.2 | KT581627 | Best match <75% sequence similarity | — | — |
| R: TACGATGTACAGCTAGGGATG | ||||||||
| Foc_12 | F: CACAAATGTGCTCTTCTGG | (TCT)14 | 153 | 55.0 | KT036684 | Best match <75% sequence similarity | — | — |
| R: CGTGGGATCTCTATCGTG | ||||||||
| Foc_15* | F: GAGGACTTCGGTGTAATTTGT | (ATTTT)4 | 185 | 55.2 | KT581628 | Best match <75% sequence similarity | — | — |
| R: CCAACGGAAGAGTTCATAATA | ||||||||
| Foc_16** | F: CTCAGCTGAACAATTCTGAG | (GAAGA)5 | 194 | 54.3 | KT581629 | PREDICTED: sec-independent protein translocase protein TATC, chloroplastic-like [Oryza brachyantha] | 90 | 5′UTR |
| R: ACTTGGAGATGGAAGATAAGG | ||||||||
| Foc_17* | F: GCCATTGTCCAGAAGTCC | (TCCTC)4 | 153 | 55.1 | KT581630 | PREDICTED: carboxyvinyl-carboxyphosphonate phosphorylmutase, chloroplastic [Amborella trichopoda] | 82 | CDS |
| R: TAATAATTAGGGGATGAGCAG | ||||||||
| Foc_18 | F: CATCGTCCTCTACCTCTACG | (CCGCTC)4 | 193 | 54.8 | KT036685 | Best match <75% sequence similarity | — | — |
| R: GCCCTCCTTGTAGTCCTC | ||||||||
| Foc_19* | F: GAAAGAGGAAGAAACCGTAGA | (TCTCCT)5 | 156 | 55.6 | KT581631 | PREDICTED: PTI1-like tyrosine-protein kinase 1 isoform X1 [Elaeis guineensis] | 91 | 5′UTR |
| R: ATCAAAAGATGGAGGAGGAG | ||||||||
| Foc_20** | F: GAGGAAGAGAGAGGAAGAGAG | (TCTTCC)5 | 134 | 54.4 | KT581632 | RING/FYVE/PHD zinc finger superfamily protein [Theobroma cacao] | 80 | 5′UTR |
| R: AGGAGTAGAGGCGTCTCAG | ||||||||
| Foc_21** | F: CTCCAAAACGAACCCAAC | (GA)12 | 134 | 55.9 | KT581633 | PREDICTED: cation transport regulator-like protein 2 [Musa acuminata subsp. malaccensis] | 76 | 5′UTR |
| R: CGAATCTAGGGCTGTATTTTT | ||||||||
| Foc_25 | F: CTCTCTCCCCATCGACAC | (AG)12 | 159 | 55.8 | KT036686 | PREDICTED: UPF0235 protein At5g63440 isoform X1 [Elaeis guineensis] | 95 | 5′UTR |
| R: GCTTGCAGTAGTAGACGAAGA | ||||||||
| Foc_27 | F: TACTCACTTCCAAGCACTCTC | (AG)16 | 122 | 56.0 | KT036687 | Membrane steroid-binding protein 1, partial [Oryza sativa Indica group] | 84 | 5′UTR |
| R: CTTCAGCGTCTCCCACAT | ||||||||
| Foc_28 | F: AAAGGGAAGTACAGAATCAGG | (GCA)10 | 147 | 54.9 | KT036688 | Best match <75% sequence similarity | — | — |
| R: GGGACAAGTCATTATCAAGTG | ||||||||
| Foc_30 | F: CATTTCCATTTTAACGAAGC | (CT)14 | 150 | 55.2 | KT036689 | PREDICTED: uncharacterized protein LOC102721803 [Oryza brachyantha] | 79 | 5′UTR |
| R: TCATTCTCTTCTTCCTCTTCC |
Note: 5′UTR = 5′ untranslated region; 3′UTR = 3′ untranslated region; CDS = coding region; Ta = annealing temperature.
a
All loci were amplified using a standard touchdown PCR.
b
Loci that were monomorphic (*) among the seven initially tested individuals of F. christophii, F. villosula, and F. micrantha; loci that were monomorphic (**) within each of the three tested species but showed some potential to differentiate between species.
c
Sequence similarities of unigenes with more than 75% identity (%) to known genes obtained using BLASTX (Altschul et al., 1990).