Difference between revisions of "Coffea arabica L."

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=='''Description'''==
 
=='''Description'''==
[[File:REFqPCRCoffea_arabica_L.jpg|right|227px|]]
+
[[File:Coffea arabica.png|right|200px|link=Coffea arabica L.]]
*Coffee is an important crop and is crucial to the economy of many developing countries, generating around US$70 billion per year.  
+
*'''''Coffea arabica''''' is a species of Coffea originally indigenous to the forests of the southwestern highlands of Ethiopia. It is an important crop and is crucial to the economy of many developing countries as international exchange commodities in agricultural trade, generating around US$70 billion per year. Its cultivation, processing, transportation and marketing provide employment for millions of people worldwide.
*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.  
+
* <font color=blue>'''Common Name:'''</font> '''Coffee'''
*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.
+
* [https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=13443 <font color=blue>'''NCBI Taxonomy'''</font>]
*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
 
  
=='''''Salt and Heat Stress'''''==
+
=='''''Abiotic Stress'''''==
===Reference Genes===
+
===Internal Control Genes===
 
{|class="wikitable sortable" style="font-size:10pt; width:100%"
 
{|class="wikitable sortable" style="font-size:10pt; width:100%"
 
|-
 
|-
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! style="width=25% font-size:9pt "|Application Scope  
 
! style="width=25% font-size:9pt "|Application Scope  
 
! Accession Number  
 
! Accession Number  
! Primer
+
! Primers (5'-3')<br>[Forward/Reverse]
 
! Size [bp]  
 
! Size [bp]  
 
! Tm [℃]
 
! Tm [℃]
 
! Detection
 
! Detection
 
|-
 
|-
|align="center"| EF1<ref name="ref1"/><ref name="ref2"/>
+
|align="center"| EF1<ref name="ref1"/>
 
|align="center"| Elongation factor 1
 
|align="center"| Elongation factor 1
 
|
 
|
*nitrogen starvation
+
*Nitrogen starvation
*salt
+
*Salinity treatment
*heat stress
+
*Heat treatment
 
|align="center"|  [https://www.ncbi.nlm.nih.gov/nucest/GW484749.1 '''GW484749.1''']  
 
|align="center"|  [https://www.ncbi.nlm.nih.gov/nucest/GW484749.1 '''GW484749.1''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
Line 36: Line 35:
 
|align="center"| Elongation factor 1-alpha
 
|align="center"| Elongation factor 1-alpha
 
|
 
|
*nitrogen starvation
+
*Nitrogen starvation
*salt
+
*Salinity treatment
*heat stress
+
*Heat treatment
 
|align="center"|  [https://www.ncbi.nlm.nih.gov/nucest/GT708303.1 '''GT708303.1''']  
 
|align="center"|  [https://www.ncbi.nlm.nih.gov/nucest/GT708303.1 '''GT708303.1''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
Line 48: Line 47:
 
|-
 
|-
 
|align="center"| GAPDH<ref name="ref1"/>
 
|align="center"| GAPDH<ref name="ref1"/>
|align="center"| glyceraldehyde-3-phosphate-dehydrogenase
+
|align="center"| Glyceraldehyde-3-phosphate-dehydrogenase
 
|
 
|
*nitrogen starvation
+
*Nitrogen starvation
*salt
+
*Salinity treatment
*heat stress
+
*Heat treatment
 
|align="center"|  [https://www.ncbi.nlm.nih.gov/nucest/GW488886.1 '''GW488886.1''']  
 
|align="center"|  [https://www.ncbi.nlm.nih.gov/nucest/GW488886.1 '''GW488886.1''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
Line 64: Line 63:
 
|align="center"| Malate dehydrogenase
 
|align="center"| Malate dehydrogenase
 
|
 
|
*nitrogen starvation
+
*Nitrogen starvation
*salt
+
*Salinity treatment
*heat stress
+
*Heat treatment
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/GW464198.1 '''GW464198.1''']  
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/GW464198.1 '''GW464198.1''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
Line 78: Line 77:
 
|align="center"| Polyubiquitin 10
 
|align="center"| Polyubiquitin 10
 
|
 
|
*nitrogen starvation
+
*Nitrogen starvation
*salt
+
*Salinity treatment
*heat stress
+
*Heat treatment
 
|align="center"|  [https://www.ncbi.nlm.nih.gov/nucest/GT697658.1 '''GT697658.1''']  
 
|align="center"|  [https://www.ncbi.nlm.nih.gov/nucest/GT697658.1 '''GT697658.1''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
Line 90: Line 89:
 
|}
 
|}
  
===Moleculer Types===
+
===Molecular Types===
 
* mRNA
 
* mRNA
  
Line 101: Line 100:
 
*'''Name''': Kenia de Carvalho
 
*'''Name''': Kenia de Carvalho
 
*'''Email''': :  keniadecarvalho@gmail.com
 
*'''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
+
*'''Institution''':  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===
 
===Citation Statistics===
Cited by '''22''' (Based on Google Scholar [2017-06-16])
+
Cited by [https://scholar.google.com/scholar?cites=3592759687893290730&as_sdt=2005&sciodt=0,5&hl=en '''23'''] (Based on Google Scholar [2017-09-01])
  
 
=='''''Different Air CO2 Supply & Temperature'''''==
 
=='''''Different Air CO2 Supply & Temperature'''''==
===Reference Genes===
+
===Internal Control Genes===
 
{|class="wikitable sortable" style="font-size:10pt; width:100%"
 
{|class="wikitable sortable" style="font-size:10pt; width:100%"
 
|-
 
|-
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! style="width=25% font-size:9pt "|Application Scope  
 
! style="width=25% font-size:9pt "|Application Scope  
 
! Accession Number  
 
! Accession Number  
! Primer
+
! Primers (5'-3')<br>[Forward/Reverse]
 
! Size [bp]  
 
! Size [bp]  
 
! Tm [℃]
 
! Tm [℃]
Line 125: Line 125:
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
 
* F:CCTGATGTCAACCACGCAACT
 
* F:CCTGATGTCAACCACGCAACT
* R:CCTGATGTCAACCACGCAACT
+
* R:GTGGTTATGAACTCTCCATTCAACC
 
|align="center"|  100  
 
|align="center"|  100  
 
|align="center"| 60
 
|align="center"| 60
Line 137: Line 137:
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
 
* F:AAGCTTGCCTATGTGGCTCTTG
 
* F:AAGCTTGCCTATGTGGCTCTTG
* R:AAGCTTGCCTATGTGGCTCTTG
+
* R:TCACTTGTCCATCTGGCAATTC
 
|align="center"|  100  
 
|align="center"|  100  
 
|align="center"| 60
 
|align="center"| 60
Line 146: Line 146:
 
|
 
|
 
* Univeral reference gene
 
* Univeral reference gene
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/GR987196 ''GR987196'']  
+
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/GR987196 '''GR987196''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
 
* F:CAATAGGGGCTTGAAGAGG
 
* F:CAATAGGGGCTTGAAGAGG
* R:CAATAGGGGCTTGAAGAGG
+
* R:TACGCTGCCAATCATCTCAG
 
|align="center"|  146  
 
|align="center"|  146  
 
|align="center"| 60
 
|align="center"| 60
Line 155: Line 155:
 
|}
 
|}
  
===Moleculer Types===
+
===Molecular Types===
 
*mRNA
 
*mRNA
 +
 
===Evaluation Methods===  
 
===Evaluation Methods===  
 
* [https://genorm.cmgg.be/ '''geNorm method''']  && [https://www.ncbi.nlm.nih.gov/pubmed/12184808 '''Related Reference''']
 
* [https://genorm.cmgg.be/ '''geNorm method''']  && [https://www.ncbi.nlm.nih.gov/pubmed/12184808 '''Related Reference''']
Line 167: Line 168:
 
*'''Email''': cochichor@isa.ulisboa.pt
 
*'''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
 
*'''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
 +
===Citation Statistics===
 +
Cited by [https://scholar.google.com/scholar?cites=1587087814594235308&as_sdt=2005&sciodt=0,5&hl=en '''2'''] (Based on Google Scholar [2017-09-01])
  
=='''Multiple Variables in Coffea spp'''==
+
=='''''Different Genotypes & Abiotic Stress'''''==
===Reference Genes===
+
===Internal Control Genes===
 
{|class="wikitable sortable" style="font-size:10pt; width:100%"
 
{|class="wikitable sortable" style="font-size:10pt; width:100%"
 
|-
 
|-
Line 176: Line 179:
 
! style="width=25% font-size:9pt "|Application Scope  
 
! style="width=25% font-size:9pt "|Application Scope  
 
! Accession Number  
 
! Accession Number  
! Primer
+
! Primers (5'-3')<br>[Forward/Reverse]
 
! Size [bp]  
 
! Size [bp]  
 
! Tm [℃]
 
! Tm [℃]
 
! Detection
 
! Detection
 
|-
 
|-
|align="center"|  GAPHD<ref name="ref4"/>
+
|align="center"|  GAPHD<ref name="ref3"/>
 
|align="center"| Glyceraldehyde 3-phosphate dehydrogenase
 
|align="center"| Glyceraldehyde 3-phosphate dehydrogenase
 
|
 
|
* total assay
+
* Total assay
*genotype
+
*Genotypes
*cold stress
+
*Cold stress
*drought stress
+
*Drought stress
*multiple stress
+
 
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/DV692958 '''DV692958''']  
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/DV692958 '''DV692958''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
* F:aggctgttgggaaagttcttc
+
* F:AGGCTGTTGGGAAAGTTCTTC
* R:actgttggaactcggaatgc
+
* R:ACTGTTGGAACTCGGAATGC
 
|align="center"| NA
 
|align="center"| NA
 
|align="center"| 60
 
|align="center"| 60
 
|align="center"| SYBR
 
|align="center"| SYBR
 
|-
 
|-
|align="center"| Cycl<ref name="ref4"/>
+
|align="center"| Cycl<ref name="ref3"/>
 
|align="center"| Cyclophilin  
 
|align="center"| Cyclophilin  
 
|
 
|
* total assay
+
* Total assay
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/GT007167 '''GT007167''']  
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/GT007167 '''GT007167''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
* F:agctctacgcagacacgactcc
+
* F:AGCTCTACGCAGACACGACTCC
* R:ggtcgatcctttgaagtgcaag
+
* R:GGTCGATCCTTTGAAGTGCAAG
 
|align="center"| NA
 
|align="center"| NA
 
|align="center"| 60
 
|align="center"| 60
 
|align="center"| SYBR
 
|align="center"| SYBR
 
|-
 
|-
|align="center"| UBQ10<ref name="ref4"/>
+
|align="center"| UBQ10<ref name="ref3"/>
 
|align="center"| Ubiquitin  
 
|align="center"| Ubiquitin  
 
|
 
|
* total assay
+
* Total assay
*genotype
+
*Genotype
*cold stress
+
*Cold stress
*multiple stress
+
 
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/DV686961 '''DV686961''']  
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/DV686961 '''DV686961''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
* F:cagaccagcagaggctgatt
+
* F:CAGACCAGCAGAGGCTGATT
* R: agaaccaagtgaagggtgga
+
* R:AGAACCAAGTGAAGGGTGGA
 
|align="center"| NA
 
|align="center"| NA
 
|align="center"| 60
 
|align="center"| 60
 
|align="center"| SYBR
 
|align="center"| SYBR
 
|-
 
|-
|align="center"| Ap47<ref name="ref4"/>
+
|align="center"| Ap47<ref name="ref3"/>
 
|align="center"| Clathrin adaptor complexes subunit
 
|align="center"| Clathrin adaptor complexes subunit
 
|
 
|
*genotype
+
*Genotype
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/DV690764 '''DV690764''']  
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/DV690764 '''DV690764''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
* F: ccagattggaggatgctctt
+
* F: CCAGATTGGAGGATGCTCTT
* R: aaatgcacaagcaacattgg
+
* R: AAATGCACAAGCAACATTGG
 
|align="center"| NA
 
|align="center"| NA
 
|align="center"| 60
 
|align="center"| 60
 
|align="center"| SYBR
 
|align="center"| SYBR
 
|-
 
|-
|align="center"| EF-1A<ref name="ref4"/>
+
|align="center"| EF-1A<ref name="ref3"/>
 
|align="center"| Elongation factor 1-alpha  
 
|align="center"| Elongation factor 1-alpha  
 
|
 
|
*genotype
+
*Genotype
*cold stress
+
*Cold stress
*drought stress
+
*Drought stress
*multiple stress
 
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/GR996930 '''GR996930''']  
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/GR996930 '''GR996930''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
* F: cattgtggtcattggtcatgtc
+
* F: CATTGTGGTCATTGGTCATGTC
* R: acacgcttgtcaattcctcca
+
* R: ACACGCTTGTCAATTCCTCCA
 
|align="center"| NA
 
|align="center"| NA
 
|align="center"| 60
 
|align="center"| 60
 
|align="center"| SYBR
 
|align="center"| SYBR
 
|-
 
|-
|align="center"| ACT<ref name="ref4"/>
+
|align="center"| ACT<ref name="ref3"/>
 
|align="center"| Actin  
 
|align="center"| Actin  
 
|
 
|
*cold stress;*drought stress
+
*Cold stress
*multiple stress
+
*Drought stress
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/GT000704 '''GT000704''']  
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/GT000704 '''GT000704''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
* F:aagcttgcctatgtggctcttg
+
* F:AAGCTTGCCTATGTGGCTCTTG
* R:tcacttgtccatctggcaattc
+
* R:TCACTTGTCCATCTGGCAATTC
 
|align="center"| NA
 
|align="center"| NA
 
|align="center"| 60
 
|align="center"| 60
 
|align="center"| SYBR
 
|align="center"| SYBR
 
|-
 
|-
|align="center"| Apt<ref name="ref4"/>
+
|align="center"| Apt<ref name="ref3"/>
 
|align="center"| Adenine phosphoribosyltransferase
 
|align="center"| Adenine phosphoribosyltransferase
 
|
 
|
*drought stress
+
*Drought stress
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/GR996015 '''GR996015''']  
 
|align="center"| [https://www.ncbi.nlm.nih.gov/nucest/GR996015 '''GR996015''']  
 
|nowrap style="font-size:9pt"|
 
|nowrap style="font-size:9pt"|
* F: actctccggggctaaaactgtc
+
* F: ACTCTCCGGGGCTAAAACTGTC
* R:aggtcgtgctggttgagttagg
+
* R:AGGTCGTGCTGGTTGAGTTAGG
 
|align="center"| NA
 
|align="center"| NA
 
|align="center"| 60
 
|align="center"| 60
 
|align="center"| SYBR
 
|align="center"| SYBR
 
|}
 
|}
===Moleculer types===
+
 
 +
===Molecular Types===
 
* mRNA
 
* mRNA
 +
 
===Evaluation Methods===
 
===Evaluation Methods===
 
* [https://genorm.cmgg.be/ '''geNorm method''']  && [https://www.ncbi.nlm.nih.gov/pubmed/12184808 '''Related Reference''']
 
* [https://genorm.cmgg.be/ '''geNorm method''']  && [https://www.ncbi.nlm.nih.gov/pubmed/12184808 '''Related Reference''']
Line 285: Line 289:
 
*'''Name''': José C. Ramalho
 
*'''Name''': José C. Ramalho
 
*'''Email''': goulao@iict.pt
 
*'''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
+
*'''Institution''': 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
 +
===Citation Statistics===
 +
Cited by [https://scholar.google.com/scholar?cites=17147318173485000408&as_sdt=2005&sciodt=0,5&hl=en '''37'''] (Based on Google Scholar [2017-09-01])
  
 
=='''References'''==
 
=='''References'''==
Line 293: Line 299:
 
</ref>
 
</ref>
 
<ref name="ref2">
 
<ref name="ref2">
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.
+
Martins M Q, Fortunato A S, Rodrigues W P, et al. Selection and validation of reference genes for accurate RT-qPCR data normalization in Coffea spp. under a climate changes context of interacting elevated [CO2] and temperature[J]. Frontiers in plant science, 2017, 8.
 +
</ref>
 +
<ref name="ref3">
 +
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.
 
</ref>
 
</ref>
 
</references>
 
</references>
 +
=='''Categories'''==
 
[[Category:Plants]]
 
[[Category:Plants]]
 +
[[Category:mRNA]][[Category:SYBR]]
 +
[[Category:ACT]] [[Category:ACT]] [[Category:AP]] [[Category:APT]] [[Category:Cyclophilin]] [[Category:EF1α]] [[Category:EF1α]] [[Category:EF1α]] [[Category:GAPDH]] [[Category:GAPDH]] [[Category:MDH]] [[Category:MDH]] [[Category:RPS]] [[Category:Ubiquitin]] [[Category:Ubiquitin]]
 +
[[Category:Nitrogen Treatment]]  [[Category:Salinity Treatment]]  [[Category:Abiotic Stress]]  [[Category:Heat Treatment]]  [[Category:Drought Treatment]]  [[Category:Different Air CO2]]  [[Category:Air Temperature]]  [[Category:Different Genotypes]]  [[Category:Cold Treatment]]
 +
 +
[[Category:geNorm]]
 +
[[Category:NormFinder]]
 +
[[Category:BestKeeper]]
 +
[[Category:RefFinder]]

Latest revision as of 09:36, 1 September 2017

Description

Coffea arabica.png
  • Coffea arabica is a species of Coffea originally indigenous to the forests of the southwestern highlands of Ethiopia. It is an important crop and is crucial to the economy of many developing countries as international exchange commodities in agricultural trade, generating around US$70 billion per year. Its cultivation, processing, transportation and marketing provide employment for millions of people worldwide.
  • Common Name: Coffee
  • NCBI Taxonomy

Abiotic Stress

Internal Control Genes

Gene Symbol Gene Name Application Scope Accession Number Primers (5'-3')
[Forward/Reverse]
Size [bp] Tm [℃] Detection
EF1[1] Elongation factor 1
  • Nitrogen starvation
  • Salinity treatment
  • Heat treatment
GW484749.1
  • F:CTGTCCTTGATTGCCACACTTCT
  • R:CTTGGGCTCCTTCTCAAGCTC
NA 60 SYBR
EF1a[1] Elongation factor 1-alpha
  • Nitrogen starvation
  • Salinity treatment
  • Heat treatment
GT708303.1
  • F:AAGGGAGCTTCCAGCTTTACCT
  • R:TGTGAGAGGTGTGGCAGTCAA
NA 60 SYBR
GAPDH[1] Glyceraldehyde-3-phosphate-dehydrogenase
  • Nitrogen starvation
  • Salinity treatment
  • Heat treatment
GW488886.1
  • F:AGGCTGTTGGGAAAGTTCTTC
  • R:ACTGTTGGAACTCGGAATGC
NA 60 SYBR
MDH[1] Malate dehydrogenase
  • Nitrogen starvation
  • Salinity treatment
  • Heat treatment
GW464198.1
  • F:CCTGATGTCAACCACGCAACT
  • R:GTGGTTATGAACTCTCCATTCAACC
NA 60 SYBR
UBQ10[1] Polyubiquitin 10
  • Nitrogen starvation
  • Salinity treatment
  • Heat treatment
GT697658.1
  • F:CAGACCAGCAGAGGCTGATT
  • R:AGAACCAAGTGAAGGGTGGA
NA 60 SYBR

Molecular Types

  • mRNA

Evaluation Methods

Contact

  • Name: Kenia de Carvalho
  • Email: : keniadecarvalho@gmail.com
  • Institution: 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 23 (Based on Google Scholar [2017-09-01])

Different Air CO2 Supply & Temperature

Internal Control Genes

Gene Symbol Gene Name Application Scope Accession Number Primers (5'-3')
[Forward/Reverse]
Size [bp] Tm [℃] Detection
MDH[2] Malate Dehydrogenase
  • Univeral reference gene
GW464198.1
  • F:CCTGATGTCAACCACGCAACT
  • R:GTGGTTATGAACTCTCCATTCAACC
100 60 SYBR
ACT [2] Actin
  • Univeral reference gene
GT000704
  • F:AAGCTTGCCTATGTGGCTCTTG
  • R:TCACTTGTCCATCTGGCAATTC
100 60 SYBR
S15[2] 40S ribosomal protein S15
  • Univeral reference gene
GR987196
  • F:CAATAGGGGCTTGAAGAGG
  • R:TACGCTGCCAATCATCTCAG
146 60 SYBR

Molecular Types

  • mRNA

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

Citation Statistics

Cited by 2 (Based on Google Scholar [2017-09-01])

Different Genotypes & Abiotic Stress

Internal Control Genes

Gene Symbol Gene Name Application Scope Accession Number Primers (5'-3')
[Forward/Reverse]
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
  • Total assay
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
  • Genotype
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
  • Drought stress
GR996015
  • F: ACTCTCCGGGGCTAAAACTGTC
  • R:AGGTCGTGCTGGTTGAGTTAGG
NA 60 SYBR

Molecular Types

  • mRNA

Evaluation Methods

Contact

  • Name: José C. Ramalho
  • Email: goulao@iict.pt
  • Institution: 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

Citation Statistics

Cited by 37 (Based on Google Scholar [2017-09-01])

References

  1. 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. 2.0 2.1 2.2 Martins M Q, Fortunato A S, Rodrigues W P, et al. Selection and validation of reference genes for accurate RT-qPCR data normalization in Coffea spp. under a climate changes context of interacting elevated [CO2] and temperature[J]. Frontiers in plant science, 2017, 8.
  3. 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.

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