Controlled alternate partial root-zone irrigation (CAPRI), also called partial root-zone drying (PRD) in other literature, is a new irrigation technique and may improve the water use efficiency of crop production without significant yield reduction. It involves part of the root system being exposed to drying soil while the remaining part is irrigated normally. The wetted and dried sides of the root system are alternated with a frequency according to soil drying rate and crop water requirement. The irrigation system is developed on the basis of two theoretical backgrounds. (i) Fully irrigated plants usually have widely opened stomata. A small narrowing of the stomatal opening may reduce water loss substantially with little effect on photosynthesis. (ii) Part of the root system in drying soil can respond to the drying by sending a root-sourced signal to the shoots where stomata may be inhibited so that water loss is reduced. In the field, however, the prediction that reduced stomatal opening may reduce water consumption may not materialize because stomatal control only constitutes part of the total transpirational resistance. The boundary resistance from the leaf surface to the outside of the canopy may be so substantial that reduction in stomatal conductance is small and may be partially compensated by the increase in leaf temperature. It is likely that densely populated field crops, such as wheat and maize, may have a different stomatal control over transpiration from that of fruit trees which are more sparsely separated. It was discussed how long the stomata can keep 'partially' closed when a prolonged and repeated 'partial' soil drying is applied and what role the rewatering-stimulated new root growth may play in sensing the repeated soil drying. The physiological and morphological alternation of plants under partial root-zone irrigation may bring more benefits to crops than improved water use efficiency where carbon redistribution among organs is crucial to the determination of the quantity and quality of the products.

Controlled alternate partial root-zone irrigation: its physiological consequences and impact on water use efficiency

With the goal of charting plant transcriptional regulatory maps (i.e. transcription factors (TFs), cis-elements and interactions between them), we have upgraded the TF-centred database PlantTFDB (http://planttfdb.cbi.pku.edu.cn/) to a plant regulatory data and analysis platform PlantRegMap (http://plantregmap.cbi.pku.edu.cn/) over the past three years. In this version, we updated the annotations for the previously collected TFs and set up a new section, 'extended TF repertoires' (TFext), to allow users prompt access to the TF repertoires of newly sequenced species. In addition to our regular TF updates, we are dedicated to updating the data on cis-elements and functional interactions between TFs and cis-elements. We established genome-wide conservation landscapes for 63 representative plants and then developed an algorithm, FunTFBS, to screen for functional regulatory elements and interactions by coupling the base-varied binding affinities of TFs with the evolutionary footprints on their binding sites. Using the FunTFBS algorithm and the conservation landscapes, we further identified over 20 million functional TF binding sites (TFBSs) and two million functional interactions for 21 346 TFs, charting the functional regulatory maps of these 63 plants. These resources are publicly available at PlantRegMap (http://plantregmap.cbi.pku.edu.cn/) and a cloud-based mirror (http://plantregmap.gao-lab.org/), providing the plant research community with valuable resources for decoding plant transcriptional regulatory systems.

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PlantRegMap: charting functional regulatory maps in plants.

Irrigation Scheduling and Evaluation of Tree Water Status in Deciduous Orchards

Maximizing fruit size is critical for profitable sweet cherry (Prunus avium L.) production. Yet, despite its importance, little is known about the genetic control of fruit size. The objective of this study was to identify quantitative trait loci (QTLs) for fruit size and two essential components of fruit size, mesocarp cell number and size. This study utilized a double pseudo-testcross population derived from reciprocal crosses between a sweet cherry cultivar with ~8 g fruit, “Emperor Francis” (EF), and a wild forest sweet cherry selection with ~2 g fruit, “New York 54” (NY). A total of 190 F1 progeny previously utilized for the construction of the linkage maps were evaluated in 2006 and 2007 for fruit weight, length, and diameter; mesocarp cell number and length; and pit length and diameter. In 2008, a subset of this population was again evaluated for fruit weight. Correlation analysis revealed that the three fruit size traits were highly correlated with each other, and mesocarp cell number, not cell length, was correlated with fruit size. Three QTLs were identified for each fruit size trait, and one QTL was identified for mesocarp cell number. Fruit size QTLs were found on linkage group 2 on the EF map (EF 2) and linkage groups 2 and 6 on the NY map (NY 2 and NY 6). On EF 2, the cell number QTL clustered with the fruit size QTL, suggesting that the underlying basis of the fruit size increase associated with this QTL was an increase in mesocarp cell number. On NY 6, pit length and diameter QTLs clustered with those for fruit size, suggesting that the underlying morphological basis of this fruit size QTL is the difference in pit size.

Fruit size QTL analysis of an F1 population derived from a cross between a domesticated sweet cherry cultivar and a wild forest sweet cherry

Striking increases in fruit size distinguish cultivated descendants from small-fruited wild progenitors for fleshy fruited species such as Solanum lycopersicum (tomato) and Prunus spp. (peach, cherry, plum, and apricot). The first fruit weight gene identified as a result of domestication and selection was the tomato FW2.2 gene. Members of the FW2.2 gene family in corn (Zea mays) have been named CNR (Cell Number Regulator) and two of them exert their effect on organ size by modulating cell number. Due to the critical roles of FW2.2/CNR genes in regulating cell number and organ size, this family provides an excellent source of candidates for fruit size genes in other domesticated species, such as those found in the Prunus genus. A total of 23 FW2.2/CNR family members were identified in the peach genome, spanning the eight Prunus chromosomes. Two of these CNRs were located within confidence intervals of major quantitative trait loci (QTL) previously discovered on linkage groups 2 and 6 in sweet cherry (Prunus avium), named PavCNR12 and PavCNR20, respectively. An analysis of haplotype, sequence, segregation and association with fruit size strongly supports a role of PavCNR12 in the sweet cherry linkage group 2 fruit size QTL, and this QTL is also likely present in sour cherry (P. cerasus). The finding that the increase in fleshy fruit size in both tomato and cherry associated with domestication may be due to changes in members of a common ancestral gene family supports the notion that similar phenotypic changes exhibited by independently domesticated taxa may have a common genetic basis.

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Cell number regulator genes in Prunus provide candidate genes for the control of fruit size in sweet and sour cherry

The Genome Database for Rosaceae (GDR, https://www.rosaceae.org) is an integrated web-based community database resource providing access to publicly available genomics, genetics and breeding data and data-mining tools to facilitate basic, translational and applied research in Rosaceae. The volume of data in GDR has increased greatly over the last 5 years. The GDR now houses multiple versions of whole genome assembly and annotation data from 14 species, made available by recent advances in sequencing technology. Annotated and searchable reference transcriptomes, RefTrans, combining peer-reviewed published RNA-Seq as well as EST datasets, are newly available for major crop species. Significantly more quantitative trait loci, genetic maps and markers are available in MapViewer, a new visualization tool that better integrates with other pages in GDR. Pathways can be accessed through the new GDR Cyc Pathways databases, and synteny among the newest genome assemblies from eight species can be viewed through the new synteny browser, SynView. Collated single-nucleotide polymorphism diversity data and phenotypic data from publicly available breeding datasets are integrated with other relevant data. Also, the new Breeding Information Management System allows breeders to upload, manage and analyze their private breeding data within the secure GDR server with an option to release data publicly.

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15 years of GDR: New data and functionality in the Genome Database for Rosaceae.

The commercial adoption of the relatively new rootstock ‘Gisela 5’ (Prunus cerasus L. x P. canescens L.) has been limited in the United States sweet cherry (P. avium L.) industry despite its ability to induce precocity and productivity and reduce scion vigor compared to the standard Mazzard (P. avium). This is due in large part to inadequate crop load management that has led to high yields of small fruit. This paper reports on sweet cherry chemical blossom thinning trials conducted in 2002 and 2003. Two percent ammonium thiosulphate (ATS), 3% to 4% vegetable oil emulsion (VOE), and tank mixes of 2% fi sh oil + 2.5% lime sulphur (FOLS) were applied to entire 8and 9-year-old ‘Bing’/‘Gisela 5’ sweet cherry canopies at about 10% full bloom (FB) and again at about 90% FB. In both years, ATS and FOLS reduced fruit set by 66% to 33% compared to the control (C). VOE reduced fruit set by 50% compared to C in 2002 but had no effect in 2003. In 2002, fruit yield was 30% to 60% lower from thinned trees. In 2003, fruit yield was unaffected by thinning treatment. In 2002, ATS and FOLS improved fruit soluble solids but had no effect in 2003. VOE did not affect fruit soluble solids in 2002 and reduced fruit soluble solids by 12%, compared to C, in 2003. In 2002, each thinning treatment nearly eliminated the yield of the small fruit (≤21.5-mm diameter) and increased yield of large fruit (≥26.5 mm) by more than 400%, compared to C. In 2003, ATS and FOLS did not affect yield of small fruit but increased the yield of large fruit by 60%. In 2003, VOE-treated trees yielded 4.3 kg of small fruit per tree compared to about 0.15 kg from C, suggesting a phytotoxic response to VOE beyond that which may effect thinning. Compared to C, ATS and FOLS consistently reduced fruit set and improved fruit quality. We conclude that commercially acceptable yields of excellent quality ‘Bing’ sweet cherries can be grown on size-controlling and precocious rootstocks.

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Chemical Blossom Thinners Vary in Their Effect on Sweet Cherry Fruit Set, Yield, Fruit Quality, and Crop Value

Progress in the development of partial rootzone drying of apple trees

Advances in precision agriculture technologies provide opportunities to improve the efficiency of agricultural production systems, especially for high-value specialty crops such as fresh apples (Malus domestica). We distributed an online survey to apple growers in Washington, New York, and Michigan to elicit stakeholder perceptions of precision agriculture technologies. Findings from this study demonstrated that growers are willing to adopt precision agriculture technologies when they receive results from applied research projects and are engaged with active extension programs. The availability of customized services and purchasing and rental options may minimize the effects of the economies of size that create barriers to adopting increasing access to technologies. Finally, respondents deemed collaborative efforts between industry and academic institutions crucial for adapting the innovation to better address the needs of growers.

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Perceptions of Precision Agriculture Technologies in the U.S. Fresh Apple Industry

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James R. McFerson

Papers

15 years of GDR: New data and functionality in the Genome Database for Rosaceae.

Chemical Blossom Thinners Vary in Their Effect on Sweet Cherry Fruit Set, Yield, Fruit Quality, and Crop Value

Progress in the development of partial rootzone drying of apple trees

Perceptions of Precision Agriculture Technologies in the U.S. Fresh Apple Industry

Gibberellic Acid Accelerates ‘Honeycrisp’, but not ‘Cameo’, Apple Fruit Maturation