Table 3 Potential candidate genes underlying quantitative trait intervals (QTI) and single quantitative trait nucleotides (QTN) detected by SL-GWAS and ML-GWAS. *, candidate genes located in the external border of investigated regions
From: GWAS of pod morphological and color characters in common bean
Chr | QTL | Candidate gene | Gene possition | Annotated function | Homologies in other species | |
|---|---|---|---|---|---|---|
Pv01 | PodL01_38.1 | Phvul.001G139000 | Chr01:38068963..38070844 | CYTOCHROME P450 | ||
Phvul.001G139100 | Chr01:38091043..38092819 | CYTOCHROME P450 | ||||
Phvul.001G139200 | Chr01:38110389..38111383 | CYTOCHROME P450 | ||||
Phvul.001G139250 | Chr01:38112176..38114223 | CYTOCHROME P450 | ||||
Phvul.001G139400 | Chr01:38120127..38122062 | CYTOCHROME P450 | ||||
Pv01 | PodLCol01_48 | Phvul.001G229900 | Chr01:48413534..48415874 | MYB transcription factor | ||
Phvul.001G230500 | Chr01:48471597..48474758 | DELLA protein (DELLA) | LlDELLA1 | |||
Phvul.001G221500 | Chr01:47685032..47687642 | MYB TRANSCRIPTION FACTOR | ||||
Pv01 | NSPCol01_51 | Phvul.001G262600 | Chr01:50971750..50975439 | SQUAMOSA PROMOTER-BINDING-LIKE PROTEIN 10-RELATED | SPL10 | AT1G27370 |
Phvul.001G261500 | Chr01:50901610..50903533 | Flavonoid 3′-monooxygenase | ||||
Pv02 | PodL02_01.7 | Phvul.002G016100 | Chr02:1734395..1736475 | WRKY TRANSCRIPTION FACTOR | ||
Phvul.002G015100 | Chr02:1649882..1652026 | MYB TRANSCRIPTION FACTOR | ||||
Pv02 | PodCol02_2.4 | Phvul.002G022800 | Chr02:2415808..2417180 | CYTOCHROME P450 | ||
Phvul.002G022900 | Chr02:2428525..2431145 | CYTOCHROME P450 | ||||
Pv02 | PodL02_29.1 | Phvul.002G141800 | Chr02:28852207..28854957 | VQ motif | FIS2 | At2G35670 |
Pv02 | PodCol02_43.6 | Phvul.002G263700 | Chr02:43532992..43534968 | CYTOCHROME P450 | ||
Phvul.002G263900 | Chr02:43543263..43545426 | CYTOCHROME P450 | ||||
Pv02 | PodLCol02_47.6 | Phvul.002G302100 | Chr02:47029085..47033074 | CYTOCHROME P450 | ||
Pv04 | PodLS04_44.5 | Phvul.004G144900 | Chr04:44604997..44608054 | MYB transcription factor | ||
Pv06 | NSPLS06_18.4 | Phvul.006G074600 | Chr06:18707877..18711126 | WRKY transcription factor 33 | TTG2 | At2G37260 |
Phvul.006G076800 | Chr06:18885566..18887347 | MYB FAMILY TRANSCRIPTION FACTOR | ||||
Phvul.006G077200 | Chr06:18914108..18916576 | EXPANSIN-A8” | ||||
Pv07 | PodCol07_32 | Phvul.007G206200* | Chr07:32882257..32884296 | MYB DOMAIN PROTEIN 55” | MYB61 | AT1G09540 |
PV08 | NSPCol08_1.7 | Phvul.008G019500 | Chr08:1626867..1635158 | Protein Mei2, | AML4 | AT5G07290 |
Pv08 | PodLCol08_2.7 | Phvul.008G031900*(1) | Chr08:2567331..2568803 | Flavone/flavonol 7-O-beta-D-glucoside malonyltransferase | ||
Pv08 | PodCol08_60.2 | Phvul.008G262700 | Chr08:60927851..60931818 | MYB transcription factor | ||
Pv10 | PodL10_01.4 | Phvul.010G010200 | Chr10:1473805..1476777 | EXPANSIN-A6 | ||
Pv10 | PodCol10_38.7 | Phvul.010G117200* | Chr10:39586639..39588546 | HOMEOBOX-LEUCINE ZIPPER PROTEIN ATHB-12-RELATED” | ARF18 | KT000600.1 |
Phvul.010G117100* | Chr10:39543750..39545984 | CYTOCHROME P450 | NYS2 /CYP78A2 | AT3G61910 | ||
Phvul.010G118700* | Chr10:39859044..39861195 | NAC DOMAIN-CONTAINING PROTEIN 43-RELATED | NTS1 | AT2G46770 | ||