Publications

@article{nokey,

title = {Optimization of sampling and monitoring of vegetative flushing in citrus orchards},

author = {Everton Vieira De Carvalho and Juan Camilo Cifuentes-Arenas and Carlos Augusto Santos De Jesus and Eduardo Sanches Stuchi and Silvio Aparecido Lopes and Eduardo Augusto Girardi},

url = {https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0233014},

doi = {10.1371/JOURNAL.PONE.0233014},

issn = {1932-6203},

year  = {2020},

date = {2020-01-01},

journal = {PLOS ONE},

volume = {15},

issue = {5},

pages = {e0233014},

publisher = {Public Library of Science},

abstract = {Citrus trees produce flushes throughout the year, but there are no criteria established for a precise shoot monitoring in orchards under tropical climate. Methods for quantification of flush dynamics would be useful for horticultural and pest management studies because different insect vectors feed and reproduce on flushes. We estimated the minimum number and distribution of trees for sampling and determined the flushing pattern over time in ‘Valencia Late’ orange trees grafted onto ‘Swingle’ citrumelo rootstock. Shoots within a square frame (0.25 m2) on two sides of the canopy were counted and classified by their phenological stage. The minimum number of samples was estimated using the mean number of shoots and area under the flush shoot dynamics (AUFSD). The temporal and spatial distribution analysis was performed by Taylor’s power law and by multiple correspondence analysis (MCA). Additionally, a shoot maturity index (SMI) based on visual qualitative assessment of flushes is proposed. Considering the mean number of shoots, it was necessary to sample two sides of 16 trees to reach a relative sampling error (Er) of 25%, whereas by the AUFSD, only five trees were necessary to reach an Er of 10%. Flushes were predominantly randomly distributed over time and space. Testing eight transects, sampled trees should be distributed throughout the block, avoiding sampling concentration in a certain area. MCA showed that the west side and the upper sampling positions of trees were more likely to be associated with younger shoots. AUFSD and the evaluation of both sides of the canopy yielded a smaller number of trees to be assessed. The SMI was a reliable metric to estimate the shoot phenology of orange trees, and correlated well (R2 > 70%) with the mean number of shoots within the square frame. Therefore, SMI has the potential to make shoot monitoring in the field more practical.},

keywords = {Citrus, Fruit crops, Linear regression analysis, Oranges, Orchards, Pest control, Statistical distributions, Trees},

pubstate = {published},

tppubtype = {article}

}

@article{nokey,

title = {Optimization of sampling and monitoring of vegetative flushing in citrus orchards},

author = {Everton Vieira De Carvalho and Juan Camilo Cifuentes-Arenas and Carlos Augusto Santos De Jesus and Eduardo Sanches Stuchi and Silvio Aparecido Lopes and Eduardo Augusto Girardi},

url = {https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0233014},

doi = {10.1371/JOURNAL.PONE.0233014},

issn = {1932-6203},

year  = {2020},

date = {2020-01-01},

journal = {PLOS ONE},

volume = {15},

issue = {5},

pages = {e0233014},

publisher = {Public Library of Science},

abstract = {Citrus trees produce flushes throughout the year, but there are no criteria established for a precise shoot monitoring in orchards under tropical climate. Methods for quantification of flush dynamics would be useful for horticultural and pest management studies because different insect vectors feed and reproduce on flushes. We estimated the minimum number and distribution of trees for sampling and determined the flushing pattern over time in ‘Valencia Late’ orange trees grafted onto ‘Swingle’ citrumelo rootstock. Shoots within a square frame (0.25 m2) on two sides of the canopy were counted and classified by their phenological stage. The minimum number of samples was estimated using the mean number of shoots and area under the flush shoot dynamics (AUFSD). The temporal and spatial distribution analysis was performed by Taylor’s power law and by multiple correspondence analysis (MCA). Additionally, a shoot maturity index (SMI) based on visual qualitative assessment of flushes is proposed. Considering the mean number of shoots, it was necessary to sample two sides of 16 trees to reach a relative sampling error (Er) of 25%, whereas by the AUFSD, only five trees were necessary to reach an Er of 10%. Flushes were predominantly randomly distributed over time and space. Testing eight transects, sampled trees should be distributed throughout the block, avoiding sampling concentration in a certain area. MCA showed that the west side and the upper sampling positions of trees were more likely to be associated with younger shoots. AUFSD and the evaluation of both sides of the canopy yielded a smaller number of trees to be assessed. The SMI was a reliable metric to estimate the shoot phenology of orange trees, and correlated well (R2 > 70%) with the mean number of shoots within the square frame. Therefore, SMI has the potential to make shoot monitoring in the field more practical.},

keywords = {Citrus, Fruit crops, Linear regression analysis, Oranges, Orchards, Pest control, Statistical distributions, Trees},

pubstate = {published},

tppubtype = {article}

}

@article{Pereira2018b,

title = {Genome-wide characterization and expression analysis of citrus NUCLEAR FACTOR-Y (NF-Y) transcription factors identified a novel NF-YA gene involved in drought-stress response and tolerance},

author = {Suzam L. S. Pereira and Cristina P. S. Martins and Aurizangela O. Sousa and Luciana R. Camillo and Caroline P. Araújo and Grazielle M. Alcantara and Danielle S. Camargo and Luciana C. Cidade and Alex Alan F. De Almeida and Marcio G. C. Costa},

url = {https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0199187},

doi = {10.1371/JOURNAL.PONE.0199187},

issn = {1932-6203},

year  = {2018},

date = {2018-01-01},

journal = {PLOS ONE},

volume = {13},

issue = {6},

pages = {e0199187},

publisher = {Public Library of Science},

abstract = {Nuclear factor Y (NF-Y) is a ubiquitous transcription factor found in eukaryotes. It is composed of three distinct subunits called NF-YA, NF-YB and NF-YC. NF-Ys have been identified as key regulators of multiple pathways in the control of development and tolerance to biotic and abiotic factors. The present study aimed to identify and characterize the complete repertoire of genes coding for NF-Y in citrus, as well as to perform the functional characterization of one of its members, namely CsNFYA5, in transgenic tobacco plants. A total of 22 genes coding for NF-Y were identified in the genomes of sweet orange (Citrus sinensis) and Clementine mandarin (C. clementina), including six CsNF-YAs, 11 CsNF-YBs and five CsNF-YCs. Phylogenetic analyses showed that there is a NF-Y orthologous in the Clementine genome for each sweet orange NF-Y gene; this was not observed when compared to Arabidopsis thaliana. CsNF-Y proteins shared the same conserved domains with their orthologous proteins in other organisms, including mouse. Analysis of gene expression by RNA-seq and EST data demonstrated that CsNF-Ys have a tissue-specific and stress inducible expression profile. qRT-PCR analysis revealed that CsNF-YA5 exhibits differential expression in response to water deficit in leaves and roots of citrus plants. Overexpression of CsNF-YA5 in transgenic tobacco plants contributed to the reduction of H2O2 production under dehydration conditions and increased plant growth and photosynthetic rate under normal conditions and drought stress. These biochemical and physiological responses to drought stress promoted by CsNF-YA5 may confer a productivity advantage in environments with frequent short-term soil water deficit.},

keywords = {Arabidopsis thaliana, Citrus, Drought adaptation, Gene expression, Genetically modified plants, Leaves, Nicotiana, Oranges},

pubstate = {published},

tppubtype = {article}

}

@article{Pereira2018,

title = {Genome-wide characterization and expression analysis of citrus NUCLEAR FACTOR-Y (NF-Y) transcription factors identified a novel NF-YA gene involved in drought-stress response and tolerance},

author = {Suzam L. S. Pereira and Cristina P. S. Martins and Aurizangela O. Sousa and Luciana R. Camillo and Caroline P. Araújo and Grazielle M. Alcantara and Danielle S. Camargo and Luciana C. Cidade and Alex Alan F. De Almeida and Marcio G. C. Costa},

url = {https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0199187},

doi = {10.1371/JOURNAL.PONE.0199187},

issn = {1932-6203},

year  = {2018},

date = {2018-01-01},

journal = {PLOS ONE},

volume = {13},

issue = {6},

pages = {e0199187},

publisher = {Public Library of Science},

abstract = {Nuclear factor Y (NF-Y) is a ubiquitous transcription factor found in eukaryotes. It is composed of three distinct subunits called NF-YA, NF-YB and NF-YC. NF-Ys have been identified as key regulators of multiple pathways in the control of development and tolerance to biotic and abiotic factors. The present study aimed to identify and characterize the complete repertoire of genes coding for NF-Y in citrus, as well as to perform the functional characterization of one of its members, namely CsNFYA5, in transgenic tobacco plants. A total of 22 genes coding for NF-Y were identified in the genomes of sweet orange (Citrus sinensis) and Clementine mandarin (C. clementina), including six CsNF-YAs, 11 CsNF-YBs and five CsNF-YCs. Phylogenetic analyses showed that there is a NF-Y orthologous in the Clementine genome for each sweet orange NF-Y gene; this was not observed when compared to Arabidopsis thaliana. CsNF-Y proteins shared the same conserved domains with their orthologous proteins in other organisms, including mouse. Analysis of gene expression by RNA-seq and EST data demonstrated that CsNF-Ys have a tissue-specific and stress inducible expression profile. qRT-PCR analysis revealed that CsNF-YA5 exhibits differential expression in response to water deficit in leaves and roots of citrus plants. Overexpression of CsNF-YA5 in transgenic tobacco plants contributed to the reduction of H2O2 production under dehydration conditions and increased plant growth and photosynthetic rate under normal conditions and drought stress. These biochemical and physiological responses to drought stress promoted by CsNF-YA5 may confer a productivity advantage in environments with frequent short-term soil water deficit.},

keywords = {Arabidopsis thaliana, Citrus, Drought adaptation, Gene expression, Genetically modified plants, Leaves, Nicotiana, Oranges},

pubstate = {published},

tppubtype = {article}

}