Description
- Coffee is an important crop and is crucial to the economy of many developing countries, generating around US$70 billion per year.
- This way, coffee is one of the most valuable international exchange commodities in agricultural trade and coffee farmings are crucial to the economy of many developing countries where its cultivation, processing, transportation and marketing provide employment for millions of people worldwide.
- Abiotic stress is one of the major factors that affect food production worldwide and in tropical countries, drought, salinity, extreme temperatures, nutrient deficiencies and mineral toxicities are among the most important limitants in crop yield.
- It is important to note that, in a scenario of climate changes, these stresses will be increasingly important, associated with land degradation and declining water quality
Abiotic Stress
Reference Genes
| Gene Symbol
|
Gene Name
|
Application Scope
|
Accession Number
|
Primer
|
Size [bp]
|
Tm [℃]
|
Detection
|
| EF1[1][2]
|
Elongation factor 1
|
- Nitrogen starvation
- Salt
- Heat stress
|
GW484749.1
|
- F:CTGTCCTTGATTGCCACACTTCT
- R:CTTGGGCTCCTTCTCAAGCTC
|
NA
|
60
|
SYBR
|
| EF1a[1]
|
Elongation factor 1-alpha
|
- Nitrogen starvation
- Salt
- Heat stress
|
GT708303.1
|
- F:AAGGGAGCTTCCAGCTTTACCT
- R:TGTGAGAGGTGTGGCAGTCAA
|
NA
|
60
|
SYBR
|
| GAPDH[1]
|
glyceraldehyde-3-phosphate-dehydrogenase
|
- Nitrogen starvation
- Salt
- Heat stress
|
GW488886.1
|
- F:AGGCTGTTGGGAAAGTTCTTC
- R:ACTGTTGGAACTCGGAATGC
|
NA
|
60
|
SYBR
|
| MDH[1]
|
Malate dehydrogenase
|
- Nitrogen starvation
- Salt
- Heat stress
|
GW464198.1
|
- F:CCTGATGTCAACCACGCAACT
- R:GTGGTTATGAACTCTCCATTCAACC
|
NA
|
60
|
SYBR
|
| UBQ10[1]
|
Polyubiquitin 10
|
- Nitrogen starvation
- Salt
- Heat stress
|
GT697658.1
|
- F:CAGACCAGCAGAGGCTGATT
- R:AGAACCAAGTGAAGGGTGGA
|
NA
|
60
|
SYBR
|
Moleculer Types
Evaluation Methods
Contact
- Name: Kenia de Carvalho
- Email: : keniadecarvalho@gmail.com
- Institute: Programa de Po´s-Graduac ¸a ˜o em Agronomia (Produc ¸a ˜o Vegetal),Departamento de Fitotecnia e Fitossanitarismo, Universidade Federal do Parana ´, Curitiba, PR CEP 80035-050, Brazil
Citation Statistics
Cited by 22 (Based on Google Scholar [2017-06-16])
Different Air CO2 Supply & Temperature
Reference Genes
| Gene Symbol
|
Gene Name
|
Application Scope
|
Accession Number
|
Primer
|
Size [bp]
|
Tm [℃]
|
Detection
|
| MDH[2]
|
Malate Dehydrogenase
|
|
GW464198.1
|
- F:CCTGATGTCAACCACGCAACT
- R:CCTGATGTCAACCACGCAACT
|
100
|
60
|
SYBR
|
| ACT [2]
|
Actin
|
|
GT000704
|
- F:AAGCTTGCCTATGTGGCTCTTG
- R:AAGCTTGCCTATGTGGCTCTTG
|
100
|
60
|
SYBR
|
| S15[2]
|
40S ribosomal protein S15
|
|
GR987196
|
- F:CAATAGGGGCTTGAAGAGG
- R:CAATAGGGGCTTGAAGAGG
|
146
|
60
|
SYBR
|
Moleculer Types
Evaluation Methods
Contact
- Name: José C. Ramalho
- Email: cochichor@isa.ulisboa.pt
- Institution: Plant-Environment Interactions and Biodiversity Lab (PlantStress&Biodiversity), Linking Landscape, Environment, Agriculture and Food, Departmento de Recursos Naturais, Ambiente e Território, Instituto Superior de Agronomia, Universidade de Lisboa (ULisboa), Oeiras, Portugal
Different Genotypes & Abiotic Stress
Reference Genes
| Gene Symbol
|
Gene Name
|
Application Scope
|
Accession Number
|
Primer
|
Size [bp]
|
Tm [℃]
|
Detection
|
| GAPHD[3]
|
Glyceraldehyde 3-phosphate dehydrogenase
|
- Total assay
- Genotypes
- Cold stress
- Drought stress
|
DV692958
|
- F:aggctgttgggaaagttcttc
- R:actgttggaactcggaatgc
|
NA
|
60
|
SYBR
|
| Cycl[3]
|
Cyclophilin
|
|
GT007167
|
- F:agctctacgcagacacgactcc
- R:ggtcgatcctttgaagtgcaag
|
NA
|
60
|
SYBR
|
| UBQ10[3]
|
Ubiquitin
|
- Total assay
- Genotype
- Cold stress
|
DV686961
|
- F:cagaccagcagaggctgatt
- R:agaaccaagtgaagggtgga
|
NA
|
60
|
SYBR
|
| Ap47[3]
|
Clathrin adaptor complexes subunit
|
|
DV690764
|
- F: ccagattggaggatgctctt
- R: aaatgcacaagcaacattgg
|
NA
|
60
|
SYBR
|
| EF-1A[3]
|
Elongation factor 1-alpha
|
- Genotype
- Cold stress
- Drought stress
|
GR996930
|
- F: cattgtggtcattggtcatgtc
- R: acacgcttgtcaattcctcca
|
NA
|
60
|
SYBR
|
| ACT[3]
|
Actin
|
- Cold stress
- Drought stress
|
GT000704
|
- F:aagcttgcctatgtggctcttg
- R:tcacttgtccatctggcaattc
|
NA
|
60
|
SYBR
|
| Apt[3]
|
Adenine phosphoribosyltransferase
|
|
GR996015
|
- F: actctccggggctaaaactgtc
- R:aggtcgtgctggttgagttagg
|
NA
|
60
|
SYBR
|
Moleculer types
Evaluation Methods
Contact
- Name: José C. Ramalho
- Email: goulao@iict.pt
- Institute: Centro de Ecofisiologia, Bioquímica e Biotecnologia Vegetal, Instituto de Investigação Científica Tropical I.P. (IICT, IP), Av. da República, Quinta do Marquês, 2784-505 Oeiras, Portugal
References
- ↑ 1.0 1.1 1.2 1.3 1.4
de Carvalho K, Bespalhok Filho J C, Dos Santos T B, et al. Nitrogen starvation, salt and heat stress in coffee (Coffea arabica L.): identification and validation of new genes for qPCR normalization[J]. Molecular biotechnology, 2013, 53(3): 315-325.
- ↑ 2.0 2.1 2.2 2.3
Kenia de CarvalhoJoão Carlos Bespalhok FilhoTiago Benedito dos SantosSilvia Graciele Hülse de SouzaLuiz Gonzaga Esteves VieiraLuis Filipe Protasio PereiraDouglas Silva Domingues. Nitrogen Starvation, Salt and Heat Stress in Coffee (Coffea arabica L.): Identification and Validation of New Genes for qPCR Normalization. Molecular Biotechnology DOI: 10.1007/s12033-012-9529-4.
- ↑ 3.0 3.1 3.2 3.3 3.4 3.5 3.6
Goulao L F, Fortunato A S, Ramalho J C. Selection of Reference Genes for Normalizing Quantitative Real-Time PCR Gene Expression Data with Multiple Variables in Coffea spp[J]. Plant Molecular Biology Reporter, 2012, 30(3): 741-759.
