Table III.

Common bean contigs composed of the most redundant ESTs

The 20 contigs from each organ containing the greatest number of ESTs were sorted according to library source. Library sources (organs) are pods collected at various times after anthesis, leaves from a Mesoamerican and Andean cultivar, roots from P-stressed plants, and effective root nodules. Asterisks denote contigs having ESTs from a single organ.

Pv ContigContig LengthTop Uniref 100 HitTop E-ValueTotal ESTs in ContigNod ESTsPod ESTsRTS ESTsLVS ESTsALV ESTs
bpCutoff of E < 10−4
Pod Contigs
    2,677668Albumin 1 precursor (Glycine soja [Wild soybean])*5.00E-5264064000
    2,671983Pod storage protein (Phaseolus vulgaris)1.00E-14645044010
    2,6621,490Alcohol dehydrogenase 1 (Glycine max)*036036000
    2,6701,103Nodulin-26 (Glycine max)1.00E-124430206116
    2,680919PSII type I chlorophyll a/b-binding protein precursor (Glycine max)1.00E-148690200490
    2,6282,000Lipoxygenase (Phaseolus vulgaris)019016300
    2,6321,456Annexin (Medicago truncatula)1.00E-14620315110
    2,598549Albumin 1 precursor (Glycine max)*6.00E-5114014000
    2,6002,039Lipoxygenase (Phaseolus vulgaris)015014001
    2,675998Chlorophyll a/b-binding protein (Glycine max)1.00E-149590140450
    2,685950Ribulose bisphosphate carboxylase precursor (Phaseolus vulgaris)1.00E-104161014011334
    2,5751,479β-Glucosidase precursor (Polygonum tinctorium)*1.00E-13712012000
    2,6521,047LHCII type III chlorophyll a/b-binding protein (Phaseolus aureus)1.00E-140280120610
    2,559921Lectin precursor (Vigna linearis var. latifolia)*1.00E-13611011000
    2,560760Acid phosphatase (Glycine max)4.00E-6411010100
    2,584763SAH7 protein (Arabidopsis thaliana)2.00E-4113110110
    2,656982LHCII type II chlorophyll a/b-binding protein (Phaseolus aureus)1.00E-151310100210
    2,660815Translationally controlled tumor protein homolog (Glycine max)1.00E-7732610871
    2,515681Nonspecific lipid transfer protein PvLTP-24 (Phaseolus vulgaris)*6.00E-59909000
    2,6391,294Cationic peroxidase 2 (Glycine max)1.00E-1802109156
Andean Leaf Contigs
    2,6782,680Transketolase 1 (Capsicum annuum)064020458
    2,6811,710Rubisco activase, chloroplast precursor (Phaseolus vulgaris)0720002052
    2,672911PSII type I chlorophyll a/b-binding protein precursor (Glycine max)1.00E-148520001042
    2,685950Ribulose bisphosphate carboxylase precursor (Phaseolus vulgaris)1.00E-104161014011334
    2,6731,449Glyceraldehyde-3-P dehydrogenase A, chloroplast precursor (Pisum sativum)0540202626
    2,651982Chlorophyll a/b-binding protein (Glycine max)1.00E-14827000126
    2,6431,541Carbonic anhydrase (Phaseolus aureus)*1.00E-17622000022
    2,6761,100Chlorophyll a/b-binding protein CP26, chloroplast precursor (Arabidopsis thaliana)1.00E-139600713121
    2,6681,523Plastidic aldolase (Trifolium pretense)0420401721
    2,659982LHCII type I chlorophyll a/b-binding protein (Phaseolus aureus)1.00E-14932050720
    2,633840Ribulose bisphosphate carboxylase precursor (Phaseolus vulgaris)*1.00E-10420000020
    2,618911Chlorophyll a/b-binding protein 7, chloroplast precursor (Lycopersicon esculentum)*1.00E-14018000018
    2,641954LHCII type II chlorophyll a/b-binding protein (Phaseolus aureus)1.00E-15122010417
    2,634867PSI reaction center subunit III (Phaseolus aureus)1.00E-11720000317
    2,6071,080Chlorophyll a/b-binding protein 8, chloroplast precursor (Lycopersicon esculentum)*1.00E-13816000016
    2,6212,460ATP synthase β-subunit (Hedycarya arborea)018000315
    2,655918Oxygen-evolving enhancer protein 3 (Pisum sativum)1.00E-77300501114
    2,6611,235Chlorophyll a/b-binding protein CP29 (Phaseolus aureus)1.00E-161320111614
    2,5811,513Phosphoribulokinase (Oryza sativa [japonica cultivar group])*012000012
    2,6271,573Triose phosphate/phosphate translocator, chloroplast precursor (Pisum sativum)019040411
Mesoamerican Leaf Contigs
    2,685950Ribulose bisphosphate carboxylase precursor (Phaseolus vulgaris)1.00E-104161014011334
    2,682931Ribulose bisphosphate carboxylase precursor (Phaseolus vulgaris)1.00E-104760206311
    2,686779Kidney bean leghemoglobin (Phaseolus vulgaris)2.00E-7526421100530
    2,680919PSII type I chlorophyll a/b-binding protein precursor (Glycine max)1.00E-148690200490
    2,675998Chlorophyll a/b-binding protein (Glycine max)1.00E-149590140450
    2,6761,100Chlorophyll a/b-binding protein CP26, chloroplast precursor (Arabidopsis thaliana)1.00E-139600713121
    2,667746Pro-rich protein (Glycine max)2.00E-5441070277
    2,6571,160Chlorophyll a/b-binding protein 8, chloroplast precursor (Lycopersicon esculentum)1.00E-13831040270
    2,6731,449Glyceraldehyde-3-P dehydrogenase A, chloroplast precursor (Pisum sativum)0540202626
    2,648852Ribulose bisphosphate carboxylase precursor (Phaseolus vulgaris)1.00E-10325010240
    2,684988Nodulin-30 precursor (Phaseolus vulgaris)1.00E-11614412000240
    2,663883PSI light-harvesting chlorophyll a/b-binding protein (Nicotiana tabacum)1.00E-11936050229
    2,656982LHCII type II chlorophyll a/b-binding protein (Phaseolus aureus)1.00E-151310100210
    2,6811,710Rubisco activase, chloroplast precursor (Phaseolus vulgaris)0720002052
    2,6681,523Plastidic aldolase (Trifolium pretense)0420401721
    2,6611,235Chlorophyll a/b-binding protein CP29 (Phaseolus aureus)1.00E-161320111614
    2,608544Hypothetical protein (Glycine max)*5.00E-1516000160
    2,6581,022PSI light-harvesting antenna chlorophyll a/b-binding protein (Pisum sativum)1.00E-12932080159
    2,630900Plastocyanin, chloroplast precursor (Pisum sativum)3.00E-6420020153
    2,679940Nodulin-30 precursor (Phaseolus vulgaris)1.00E-118685400140
P-Deficient Roots
    2,665795Pathogenesis-related protein 1 (Phaseolus vulgaris)8.00E-8340103810
    2,6161,154Extensin class 1 protein precursor (Vigna unguiculata)1.00E-14217021500
    2,6151,297Putative plasma membrane intrinsic protein (Pisum sativum)1.00E-14817011231
    2,6201,819S-Adenosyl methionine decarboxylase (Phaseolus lunatus)018001116
    2,563575Type 1 metallothionein (Dolichos lab lab)*6.00E-3511001100
    2,660815Translationally controlled tumor protein homolog (Glycine max)1.00E-7732610871
    2,644791Histone H3 (Oryza sativa)3.00E-702234861
    2,6291,730No BLASTX hit to Uniref 1002054812
    2,5621,268Glyceraldehyde-3-P dehydrogenase, cytosolic (Dianthus caryophyllus)1.00E-1751112800
    2,496729No BLASTX hit to Uniref 100*800800
    2,5121,091Putative elongation factor 2 (Oryza sativa [japonica cultivar group])1.00E-158902700
    2,479727Pro-rich 14-kD protein (Phaseolus vulgaris)*8.00E-68700700
    2,6701,103Nodulin-26 (Glycine max)1.00E-124430206116
    2,4411,455Putative WRKY4 transcription factor (Vitis aestivalis)1.00E-113700610
    2,5251,671CYP81E8 (Medicago truncatula)0920610
    2,5731,645T6D22.2 (Arabidopsis thaliana)01241601
    2,376586No BLASTX hit to Uniref 100*600600
    2,409943Hypothetical protein upa10 (Capsicum annuum)*2.00E-61600600
    2,6691,723T6D22.2 (Arabidopsis thaliana)042129588
    2,6641,059Cytosolic ascorbate peroxidase (Vigna unguiculata)1.00E-14038167573
Nodules
    2,686779Kidney bean leghemoglobin (Phaseolus vulgaris)2.00E-7526421100530
    2,684988Nodulin-30 precursor (Phaseolus vulgaris)1.00E-11614412000240
    2,6831,522CDR1 (Arabidopsis thaliana)2.00E-8783770060
    2,679940Nodulin-30 precursor (Phaseolus vulgaris)1.00E-118685400140
    2,674864Phaseolus vulgaris nodulin-30 (Phaseolus vulgaris)1.00E-12354490050
    2,666667Kidney bean leghemoglobin (Phaseolus vulgaris)2.00E-7440310090
    2,6451,182Uricase II (Phaseolus vulgaris)1.00E-17723220100
    2,6542,827Sucrose synthase (Phaseolus vulgaris)030213330
    2,653974Phaseolus vulgaris nodulin-30 (Phaseolus vulgaris)1.00E-124291800110
    2,638947Nodulin 30 precursor (Phaseolus vulgaris)1.00E-11821180030
    2,6461,462Glutamine synthetase N-1 (Phaseolus vulgaris)023172040
    2,6641,059Cytosolic ascorbate peroxidase (Vigna unguiculata)1.00E-14038167573
    2,6421,467Glutamine synthetase PR-1 (Phaseolus vulgaris)022140431
    2,6361,462Fructose-bisphosphate aldolase, cytoplasmic isozyme (Cicer arietinum)1.00E-17720143300
    2,6691,723T6D22.2 (Arabidopsis thaliana)042129588
    2,6011,017MtN24 protein (Medicago truncatula)7.00E-4315120030
    2,6261,527S-Adenosyl-l-methionine synthetase (Dendrobium crumenatum)019112222
    2,6121,222Malate dehydrogenase (Nicotiana tabacum)1.00E-17717114020
    2,6141,052Putative phosphatase (Phaseolus vulgaris)1.00E-14217103220
    2,589822Early nodulin 55-2 precursor (Glycine max)1.00E-7113100030