CGP EST Library Info (Tissue & RNA Isolation)

Species Library Name Tissues Harvested RNA Isolation Method
L. sativa cv. Salinas QG(ABCDI) calli: grown on MS media (Murashige and Skoog, 19XX) with 0.1 mg/L IAA Modification of Pawlowski et al. (1994)
roots
pre-fertilized flowers
post-fertilized flowers
fully expanded leaves, seedling shoots and roots: 1.2 mM benzothiadiazole foliar application, 4 hrs and 48 hrs
fully expanded leaves, seedling shoots and roots: 0.5 mM jasmonic acid foliar application, 4 hrs and 48 hrs
fully expanded leaves, seedling shoots and roots: 50 ppm ethylene for 4 hrs and 12 hrs
fully expanded leaves, seedling shoots and roots: 100 uM indoleacetic acid foliar application, 4 hrs and 12 hrs
fully expanded leaves, seedling shoots and roots: 100 uM giberellic acid foliar application, 4 hrs and 12 hrs
fully expanded leaves, seedling shoots and roots: 100 uM zeatin foliar application, 4 hrs and 12 hrs
salt-treated leaves, roots, and pre-anthesis flowers: 250 mM NaCl, 48 hrs
drought-treated leaves, roots, and pre-anthesis flowers: water withheld for 48 hrs until wilting
heat-treated leaves, roots, and pre-anthesis flowers: 2 hrs at 40oC, 2 hrs recovery
cold-treated leaves, roots, and pre-anthesis flowers: 24 hrs at 0oC, 24 hrs recovery
leaves and seedlings dark-grown in 0.25x nutrient solution, 14 days
leaves wounded with pintool, 2 hrs and 24 hrs
seeds: imbibed at 20oC, in water or 100 uM ABA, light or dark, for 17 hrs
seeds: imbibed at 30oC, in water or 100 uM GA(4+7), light or dark, for 18 or 24 hrs
seeds: imbibed at 30oC, in 10 mM ACC, light or dark, for 18 or 44 hrs
L. serriola QG(EFGHJ) calli: grown on MS media (Murashige and Skoog, 19XX) with 0.1 mg/L IAA Modification of Pawlowski et al. (1994)
roots
pre-fertilized flowers
post-fertilized flowers
fully expanded leaves, seedling shoots and roots: 1.2 mM benzothiadiazole foliar application, 4 hrs and 48 hrs
fully expanded leaves, seedling shoots and roots: 0.5 mM jasmonic acid foliar application, 4 hrs and 48 hrs
fully expanded leaves, seedling shoots and roots: 50 ppm ethylene for 4 hrs and 12 hrs
fully expanded leaves, seedling shoots and roots: 100 uM indoleacetic acid foliar application, 4 hrs and 12 hrs
fully expanded leaves, seedling shoots and roots: 100 uM giberellic acid foliar application, 4 hrs and 12 hrs
fully expanded leaves, seedling shoots and roots: 100 uM zeatin foliar application, 4 hrs and 12 hrs
salt-treated leaves, roots, and pre-anthesis flowers: 250 mM NaCl, 48 hrs
drought-treated leaves, roots, and pre-anthesis flowers: water withheld for 48 hrs until wilting
heat-treated leaves, roots, and pre-anthesis flowers: 2 hrs at 40oC, 2 hrs recovery
cold-treated leaves, roots, and pre-anthesis flowers: 24 hrs at 0oC, 24 hrs recovery
leaves and seedlings dark-grown in 0.25x nutrient solution, 14 days
leaves wounded with pintool, 2 hrs and 24 hrs
seeds: imbibed at 20oC, in water or 100 uM ABA, light or dark, for 17 hrs
seeds: imbibed at 30oC, in water or 100 uM GA(4+7), light or dark, for 18 or 24 hrs
seeds: imbibed at 30oC, in 10 mM ACC, light or dark, for 18 or 44 hrs
H. annuus (RHA-801) QH(ABCDI) calli: grown on MS media (Murashige and Skoog, 19XX) with 0.1 mg/L IAA Modification of Pawlowski et al. (1994)
seedling roots
disk and ray flowers: harvested upon flower opening
disk flowers: harvested 2-6 days pre-anthesis
developing kernels: harvested 18-24 days after flowering
fully expanded leaves, seedling shoots and roots: 1.2 mM benzothiadiazole foliar application, 4 hrs and 48 hrs
fully expanded leaves, seedling shoots and roots: 0.5 mM jasmonic acid foliar application, 4 hrs and 48 hrs
fully expanded leaves, seedling shoots and roots: 50 ppm ethylene for 4 hrs and 12 hrs
fully expanded leaves, seedling shoots and roots: 100 uM indoleacetic acid foliar application, 4 hrs and 12 hrs
fully expanded leaves, seedling shoots and roots: 100 uM giberellic acid foliar application, 4 hrs and 12 hrs
fully expanded leaves, seedling shoots and roots: 100 uM zeatin foliar application, 4 hrs and 12 hrs
seedling roots: drought-, heat-, and cold-stressed
seedling shoots and leaves: drought-, heat-, and cold-stressed
anthesis-state disk flowers: drought-, heat-, and cold-stressed
developing pericarps (hulls): harvested 18-24 days after flowering
seeds: imbibed at 30oC in 100 uM ABA, 100 uM GA (4+7), or 10 mM ACC, for 18 hrs
seeds: imbibed at 30oC and 24oC in water
H. annuus (RHA-280) QH(EFGHJ) calli: grown on MS media (Murashige and Skoog, 19XX) with 0.1 mg/L IAA Modification of Pawlowski et al. (1994)
seedling roots
disk and ray flowers: harvested upon flower opening
disk flowers: harvested 2-6 days pre-anthesis
developing kernels: harvested 18-24 days after flowering
fully expanded leaves, seedling shoots and roots: 1.2 mM benzothiadiazole foliar application, 4 hrs and 48 hrs
fully expanded leaves, seedling shoots and roots: 0.5 mM jasmonic acid foliar application, 4 hrs and 48 hrs
fully expanded leaves, seedling shoots and roots: 50 ppm ethylene for 4 hrs and 12 hrs
fully expanded leaves, seedling shoots and roots: 100 uM indoleacetic acid foliar application, 4 hrs and 12 hrs
fully expanded leaves, seedling shoots and roots: 100 uM giberellic acid foliar application, 4 hrs and 12 hrs
fully expanded leaves, seedling shoots and roots: 100 uM zeatin foliar application, 4 hrs and 12 hrs
seedling roots: drought-, heat-, and cold-stressed
seedling shoots and leaves: drought-, heat-, and cold-stressed
anthesis-state disk flowers: drought-, heat-, and cold-stressed
developing pericarps (hulls): harvested 18-24 days after flowering
seeds: imbibed at 30oC in 100 uM ABA, 100 uM GA (4+7), or 10 mM ACC, for 18 hrs
seeds: imbibed at 30oC and 24oC in water
H. paradoxus QH(K) seedling shoot apices Modification of Pawlowski et al. (1994)
seedling roots
seedling leaves
anthesis-stage disk flowers
H. paradoxus QH(L) salt-treated seedling shoot apices "subtracted from" non-stressed seedling shoot apices Modification of Pawlowski et al. (1994)
salt-treated seedling roots "subtracted from" non-stressed seedling roots
salt-treated seedling leaves "subtracted from" non-stressed seedling leaves
salt-treated anthesis-stage disk flowers "subtracted from" non-stressed anthesis-stage disk flowers
H. argophyllus QH(M) seedling shoot apices Modification of Pawlowski et al. (1994)
seedling roots
seedling leaves
H. argophyllus QH(N) drought-stressed seedling shoot apices "subtracted from" non-stressed seedling shoot apices Modification of Pawlowski et al. (1994)
drought-stressed seedling roots "subtracted from" non-stressed seedling roots
drought-stressed seedling leaves "subtracted from" non-stressed seedling leaves
L. sativa cv. Salinas CLS(XYZ) seeds: imbibed in water, light or dark conditions, for 24 hrs Cooley et al. (1999)
roots (excluding tap root) from four-weeks-old plants, hydroponically grown in Hoagland media Modified Trizol (see Materials and methods) or RNeasy Maxi kit
etiolated seedlings: seeds imbibed in water at 20oC for 12 hrs in light, transferred to dark for 69 hrs RNeasy Maxi kit
shoot apical meristems: dissectd from plants at 5-6 true leaf stage (approx. 6 weeks old)
defense-induced leaves: harvested 24 hrs after treatment (see Material and methods)
defense-induced seedlings: harvested 30 mins after treatment (see Material and methods)
flower/seed development series: 2-8 mm long buds, at anthesis and 6 days post-anthesis flowers
L. sativa cv. Salinas CLS(LMS) seeds: imbibed in water, light or dark conditions, for 24 hrs Cooley et al. (1999)
roots (excluding tap root) from four-weeks-old plants, hydroponically grown in Hoagland media Modified Trizol (see Materials and methods) or RNeasy Maxi kit
etiolated seedlings: seeds imbibed in water at 20oC for 12 hrs in light, transferred to dark for 69 hrs RNeasy Maxi kit
shoot apical meristems: dissectd from plants at 5-6 true leaf stage (approx. 6 weeks old)
defense-induced leaves: harvested 24 hrs after treatment (see Material and methods)
defense-induced seedlings: harvested 30 mins after treatment (see Material and methods)
flower/seed development series: 2-8 mm long buds, at anthesis and 6 days post-anthesis flowers
L. serriola CLR(XYZ) seeds: imbibed in water, light or dark conditions, for 24 hrs Cooley et al. (1999)
roots (excluding tap root) from four-weeks-old plants, hydroponically grown in Hoagland media RNeasy Maxi kit
etiolated seedlings: seeds imbibed in water at 20oC for 12 hrs in light, transferred to dark for 69 hrs
shoot apical meristems: dissectd from plants at 5-6 true leaf stage (approx. 6 weeks old)
defense-induced leaves: harvested 24 hrs after treatment (see Material and methods)
defense-induced seedlings: harvested 30 mins after treatment (see Material and methods)
flower/seed development series: 2-8 mm long buds, at anthesis and 6 days post-anthesis flowers
L. saligna CLL(XYZ) seeds: imbibed in water, light or dark conditions, for 24 hrs Cooley et al. (1999)
roots (excluding tap root) from four-weeks-old plants, hydroponically grown in Hoagland media Modified Trizol (see Materials and methods) or RNeasy Maxi kit
etiolated seedlings: seeds imbibed in water at 20oC for 12 hrs in light, transferred to dark for 69 hrs RNeasy Maxi kit
shoot apical meristems: dissectd from plants at 5-6 true leaf stage (approx. 6 weeks old)
defense-induced leaves: harvested 24 hrs after treatment (see Material and methods)
defense-induced seedlings: harvested 30 mins after treatment (see Material and methods)
flower/seed development series: 2-8 mm long buds, at anthesis and 6 days post-anthesis flowers
L virosa CLV(XYZ) seeds: imbibed in water, light or dark conditions, for 24 hrs Cooley et al. (1999)
roots (excluding tap root) from four-weeks-old plants, hydroponically grown in Hoagland media Modfied Trizol (see Materials and methods) or RNeasy Maxi kit
etiolated seedlings: seeds imbibed in water at 20oC for 12 hrs in light, transferred to dark for 69 hrs RNeasy Maxi kit
shoot apical meristems: dissectd from plants at 5-6 true leaf stage (approx. 6 weeks old)
defense-induced leaves: harvested 24 hrs after treatment (see Material and methods)
defense-induced seedlings: harvested 30 mins after treatment (see Material and methods)
flower/seed development series: 2-8 mm long buds, at anthesis and 6 days post-anthesis flowers
L. perennis CLP(XYZ) seeds: imbibed in water, light or dark conditions, for 24 hrs Cooley et al. (1999)
roots (excluding tap root) from four-weeks-old plants, hydroponically grown in Hoagland media RNeasy Maxi kit
etiolated seedlings: seeds imbibed in water at 20oC for 12 hrs in light, transferred to dark for 69 hrs
shoot apical meristems: dissectd from plants at 5-6 true leaf stage (approx. 6 weeks old)
defense-induced leaves: harvested 24 hrs after treatment (see Material and methods)
defense-induced seedlings: harvested 30 mins after treatment (see Material and methods)
H. annuus CHA(XYZ) roots harvested from 4-6 weeks-old seedlings at 5-8 true leaf stage Combined Trizol/RNeasy (see Materials and methods)
leaves from 4-6 weeks-old seedlings dark-grown for previous 48 hrs
flowers: mix of very small immature buds to fully mature flowers Trizol/70% ethanol/RNeasy (see Materials and methods)
H. argophyllus CHW(LMS) roots harvested from seedlings 14 days after germination Trizol as per Invitrogen
young leaves, leaf stalks and secondary leaves at node regions of 8 leaf stage seedlings held 2 days in dark
woody stems harvested from seedlings 30-50 days after germination
pre-anthesis disk and ray flowers
shoot apexes harvested from seedlings 20-40 days after germination
developing achenes harvested 14-18 days after flowering
H. paradoxus CHU(LMS) roots harvested from 4-6 weeks old seedlings at 5-8 true leaf stage Combined Trizol/RNeasy (see Materials and methods)
leaves from 4-6 weeks old seedlings dark-grown for last 48 hours Combined Trizol/RNeasy (see Materials and methods)
mix of flowers from immature buds to fully mature flowers Trizol/70% ethanol/RNeasy (see Materials and methods)
H. exillis CHE(LMS) roots harvested from seedlings 14 days after germination Trizol as per Invitrogen
young leaves, leaf stalks and secondary leaves at node regions of 8 leaf stage seedlings held 2 days in dark
developing achenes harvested 14-18 days after flowering
pre-anthesis disk and ray flowers
shoot apexes harvested from seedlings 20-40 days after germination
H. ciliaris CHC(LMS) roots harvested from 8-10 weeks old seedlings at 5-8 true leaf stage Combined Trizol/RNeasy (see Materials and methods)
leaves from 8-10 weeks old seedlings dark-grown for last 48 hours
mix of flowers from immature buds to fully mature flowers Trizol/70% ethanol/RNeasy (see Materials and methods)
H. petiolaris CHP(XYZ) roots harvested from 4-6 weeks old seedlings at 5-8 true leaf stage Combined Trizol/RNeasy (see Materials and methods)
leaves from 4-6 weeks old seedlings dark-grown for last 48 hours
mix of flowers from immature buds to fully mature flowers Trizol/70% ethanol/RNeasy (see Materials and methods)
H. tuberosus CHT(LMS) roots harvested from seedlings 14 days after germination Trizol as per Invitrogen
young leaves, leaf stalks and secondary leaves at node regions of 8 leaf stage seedlings held 2 days in dark
pre-anthesis disk and ray flowers
developing achenes harvested 14-18 days after flowering
tubers harvested from plants 90-120 days after germination
Cichorium endivia CCE(LMS) roots RNeasy Mini Kit
mature leaves RNeasy Maxi Kit OR Hot Phenol as per K. Schneitz (2000) OR Hot Trizol as per L. Moy (2004)
mix of flowers from immature buds to fully mature flowers Hot Phenol as per K. Schneitz (2000) OR Hot Trizol as per L. Moy (2004) http://atarrays.tigr.org/PDF/M013_2.pdf
Cichorium intybus CCI(LMS) roots RNeasy Mini Kit
mature leaves RNeasy Maxi Kit OR Hot Phenol as per K. Schneitz (2000) OR Hot Trizol as per L. Moy (2004)
mix of flowers from immature buds to fully mature flowers Hot Phenol as per K. Schneitz (2000) OR Hot Trizol as per L. Moy (2004) http://atarrays.tigr.org/PDF/M013_2.pdf
Carthamus tinctorius CFF(LMS) roots harvested from seedlings 14 days after germination Trizol as per Invitrogen
young leaves, leaf stalks and secondary leaves at node regions of 8 leaf stage seedlings held 2 days in dark
pre-anthesis disk and ray flowers
developing achenes harvested 14-18 days after flowering
Centaurea solstitialis CNS(LMS) roots RNeasy Mini Kit
mature leaves RNeasy Maxi Kit OR Hot Phenol as per K. Schneitz (2000) OR Hot Trizol as per L. Moy (2004)
mix of flowers from immature buds to fully mature flowers Hot Phenol as per K. Schneitz (2000) OR Hot Trizol as per L. Moy (2004) http://atarrays.tigr.org/PDF/M013_2.pdf
Centaurea maculosa CNM(LMS) roots RNeasy Mini Kit
mature leaves RNeasy Maxi Kit OR Hot Phenol as per K. Schneitz (2000) OR Hot Trizol as per L. Moy (2004)
mix of flowers from immature buds to fully mature flowers Hot Phenol as per K. Schneitz (2000) OR Hot Trizol as per L. Moy (2004) http://atarrays.tigr.org/PDF/M013_2.pdf
Taraxacum officinale CTO(XYZ) tap and axillary roots from 6 weeks old plants grown on perlite in 0.5 Hoagland media Two RNeasy columns (see Materials and methods)
defense-induced leaves harvested 6 and 24 hrs after salicylic acid treatment (see Materials and methods)
defense-induced leaves harvested 6 and 24 hrs after jasmonic acid treatment (see Materials and methods)
3-4 days pre-anthesis flower buds (florets only, green bracts and receptacle removed)
2-3 days post-anthesis maturing fruits (florets only, green bracts and receptacle removed)
Carthamus tinctorius CFF(XYZ) roots harvested from seedlings 14 days after germination Trizol as per Invitrogen
young leaves, leaf stalks and secondary leaves at node regions of 8 leaf stage seedlings held 2 days in dark
pre-anthesis disk and ray flowers
developing achenes harvested 14-18 days after flowering
H. tuberosus CHT(XYZ) roots harvested from seedlings 14 days after germination Trizol as per Invitrogen
young leaves, leaf stalks and secondary leaves at node regions of 8 leaf stage seedlings held 2 days in dark
pre-anthesis disk and ray flowers
developing achenes harvested 14-18 days after flowering
tubers harvested from plants 90-120 days after germination
H. paradoxus CHU(XYZ) roots harvested from 4-6 weeks old seedlings at 5-8 true leaf stage Combined Trizol/RNeasy (see Materials and methods)
leaves from 4-6 weeks old seedlings dark-grown for last 48 hours
mix of flowers from immature buds to fully mature flowers Trizol/70% ethanol/RNeasy (see Materials and methods)
H. exillis CHE(XYZ) roots harvested from seedlings 14 days after germination Trizol as per Invitrogen
young leaves, leaf stalks and secondary leaves at node regions of 8 leaf stage seedlings held 2 days in dark
developing achenes harvested 14-18 days after flowering
pre-anthesis disk and ray flowers
shoot apexes harvested from seedlings 20-40 days after germination
H. argophyllus CHW(XYZ) roots harvested from seedlings 14 days after germination Trizol as per Invitrogen
young leaves, leaf stalks and secondary leaves at node regions of 8 leaf stage seedlings held 2 days in dark
woody stems harvested from seedlings 30-50 days after germination
pre-anthesis disk and ray flowers
shoot apexes harvested from seedlings 20-40 days after germination
developing achenes harvested 14-18 days after flowering