Table 3 Summary of reported QTLs and candidate genes from GWA mapping associated with salt tolerance that are co-located to these segments

1

qSES1, qPH1, qPN1, qPS1, qGPP1 [73] (RM582-RM8094)

SES, PH, PAN, UFG, GPP

2.1

qSKC-1 [75]

(C1211-S2139)

SKC

1.4

1

LOC_Os01g18850

1

qSTR-1 [77] (RM9-RM128)

STR

7.4

qSKC1.1 [74]

(RM488-RM473)

SKC

3.3

10

LOC_Os01g45120, LOC_Os01g45520, LOC_Os01g59020

qPH1.1, qPL1.2, qPF1.5 [107] (RM128-RM472)

PH, PL, PF

7.2

qSDS-1, 99SL [75, 78]

(C813-C86)

DSS, RNC, SHL

3.8

1

qPH1.1 s, qPL1.1 s [58]

(RM246-RM431)

PH, PL

11.6

qST1 [76] (RG109-RZ14)

SES

1.2

3

LOC_Os01g66740, LOC_Os01g66760, LOC_Os01g66800

2

qDSS2.1 [74] (RM109-RM110)

DSS

1.1

–

19

LOC_Os02g02120, LOC_Os02g02390, LOC_Os02g02410, LOC_Os02g02424, LOC_Os02g02540, LOC_Os02g02640, LOC_Os02g02690, LOC_Os02g02750, LOC_Os02g02930, LOC_Os02g02990

2

qGY2.1 s [58] (RM555-RM324)

GY

7.1

qSST2 [74] (RM211-RM71)

SES

6.7

10

LOC_Os02g09340, LOC_Os02g09420, LOC_Os02g10090, LOC_Os02g10100, LOC_Os02g10200, LOC_Os02g10230, LOC_Os02g19220

qSDW-2 [56]

(RM279-RM6911)

SDW

6.1

qFRSP2.1 s, qSPFR2.1 s [58] (RM423-RM174)

FRSP, SPFR

2.7

qPL2.1 s [58]

(RM174-RM424)

PL

4.4

2

qPL-2 2 [80] (RM5699-RM262)

PL

11.1

–

3

LOC_Os02g25630, LOC_Os02g27690, LOC_Os02g32480

2

qNAK-2 [77] (RM262-RM318)

RNAK

8.8

00SW [78] (C560B-C1408)

TIL

7.2

9

LOC_Os02g40120, LOC_Os02g40410, LOC_Os02g40420

3

qDSS3 [74] (RM489-RM7)

DSS

5.5

–

2

LOC_Os03g11280

3

qST3 [76] (RZ585-RG179)

SES

7

qFWRO-3b [80]

(RM6283-RM6832)

RFW

5.4

2

LOC_Os03g30510, LOC_Os03g35340

3

qPH3.1 s [58] (RM487-RM130)

PL

11.4

qNAUP-3 [80]

(RM5626-RM416)

NAUP

6.4

1

LOC_Os03g49860

3

qGP-3 [57] (RM49-RM6712)

GP

7.1

qPL3.1 s [58]

(RM520-RM570)

PL

4.7

28

LOC_Os03g58764, LOC_Os03g61080, LOC_Os03g61110, LOC_Os03g61130, LOC_Os03g61140, LOC_Os03g61150, LOC_Os03g61220, LOC_Os03g62388, LOC_Os03g62400, LOC_Os03g62430, LOC_Os03g63250, LOC_Os03g63680

qSHL-3 [80]

(RM7000-RM7389)

SHL

2.4

4

TEL4S-RM261 [19]

SKC

6.6

–

3

LOC_Os04g08749

4

RG190-RG449 [110]

SNC, SKC

9.1

qDSRs4–2 [108]

(RM307-RM471)

DSR

5.9

2

LOC_Os04g28170, LOC_Os04g28190

5

qDTF5 [73] (RM430-RM274)

HD

8.2

qDWRO-5b [80]

(RM440-RM480)

RDW

7.4

11

LOC_Os05g37870, LOC_Os05g44290, LOC_Os05g44320, LOC_Os05g44330, LOC_Os05g44370

qSST5 [74] (RM161-RM3476)

SES

2.9

qSDM5–5 [109] (RZ70-RZ225)

BM

2.9

5

QTL44 [106] (M233B-RM334)

SES

4.7

–

9

LOC_Os05g47670, LOC_Os05g47690, LOC_Os05g47770, LOC_Os05g47780, LOC_Os05g47790

6

qSES6, qTN, qPN6, qGPP6, qTGW6, qGY6 [73] (RM586-RM253)

SES, TIL, PAN, GY, 1000GW

4.0

–

1

LOC_Os06g04190

6

qDRW6 [79] (RM5531-RM3183)

RDW

5.3

qTN6, qGY6 [73]

(RM253-RM527)

TIL, GY

4.4

5

LOC_Os06g16400, LOC_Os06g18980, LOC_Os06g19300, LOC_Os06g21210, LOC_Os06g21230

7

qPH7.1, qTNI7.2 [107]

(RM51-RM1243)

PL, TIL

3.35

–

6

LOC_Os07g04220, LOC_Os07g04270, LOC_Os07g04290, LOC_Os07g04310

8

qSTW8.1 s [58] (RM407-RM310)

STDW

4.6

–

6

LOC_Os08g02050, LOC_Os08g07400, LOC_Os08g07430

8

qSNK-8 [56] (RM3572-RM404)

SNK

11.5

qTN8.1, qBM8.2 [107]

(RM3215-RM44)

TIL, BM

3.2

11

LOC_Os08g09200, LOC_Os08g09260, LOC_Os08g09715, LOC_Os08g10330, LOC_Os08g10430, LOC_Os08g10440, LOC_Os08g10570, LOC_Os08g10630, LOC_Os08g16880

8

qSTR-8 [56] (RM7027-RM8264)

STR

4

–

100

LOC_Os08g30730, LOC_Os08g30740, LOC_Os08g30770, LOC_Os08g30780, LOC_Os08g30790, LOC_Os08g30800, LOC_Os08g30810, LOC_Os08g30820, LOC_Os08g30870, LOC_Os08g30900, LOC_Os08g30910, LOC_Os08g30930, LOC_Os08g31000, LOC_Os08g31040, LOC_Os08g31080, LOC_Os08g31110, LOC_Os08g31120, LOC_Os08g31130, LOC_Os08g31180, LOC_Os08g31320, LOC_Os08g31340, LOC_Os08g31410, LOC_Os08g31420, LOC_Os08g31450, LOC_Os08g31460, LOC_Os08g31470, LOC_Os08g31550, LOC_Os08g31600, LOC_Os08g31620, LOC_Os08g31690, LOC_Os08g31700, LOC_Os08g31740, LOC_Os08g31800, LOC_Os08g31814, LOC_Os08g31840, LOC_Os08g31980

9

qGP-9 [57] (RM219-RM7048)

SG

8.5

qRL-9 [56] (RM219-RM7038)

RL

3.4

1

LOC_Os09g18530

9

RZ206-RG358 [110]

LWC

10.1

qIR-9 [57] (RM3320-RM2144)

IR

4.7

2

LOC_Os09g34110, LOC_Os09g36976

10

qPS10, qGPP10 [73]

(RM184-RM590)

UFG, GPP

6.7

qDTF10.1 s, qSPFR2.10s, qTGW10.1 s [58]

(RM271-RM484)

DTF, SPFR, 1000GW

6.7

2

LOC_Os10g35436, LOC_Os10g38020

qDTF10.1, qTGW10 [73] (RM184-RM228)

HD, 1000GW

5.9

qSDM-10 [109]

(RZ625-RZ500)

BM

4.4

qSKC-10b [56]

(RM258-RM333)

SKC

4.4

11

qDSS11 [74] (RM167-RM3428)

DSS

9.4

–

1

LOC_Os11g11510

11

qDRW11 [79] (RM6091-RM229)

RDW

4.5

–

2

LOC_Os11g29970, LOC_Os11g30220

11

RG16-RG1109 [110]

LWC

5

RG16-CDO365 [110]

LWC

1.4

5

LOC_Os11g31480, LOC_Os11g31810, LOC_Os11g33230, LOC_Os11g33942

11

qTN11, qPN11, qGPP11, qGY11 [73] (RM457-RM254)

TIL, PAN, GPP, GY

4.7

–

2

LOC_Os11g39330, LOC_Os11g40420

12

qGY12.1 [107] (RM519-RM1103)

GY

3.7

–

33

LOC_Os12g35770, LOC_Os12g35820, LOC_Os12g35850, LOC_Os12g35920, LOC_Os12g36630, LOC_Os12g38051, LOC_Os12g37920, LOC_Os12g36690, LOC_Os12g37720, LOC_Os12g37740 LOC_Os12g37760, LOC_Os12g37770, LOC_Os12g37860, LOC_Os12g37870, LOC_Os12g37890