Transcriptome profiling of Cucumis melo fruit development and ripening

Zhang, Hong; Wang, Huaisong; Huiuk, Yi; Zhai, Wei; Wang, Guangzhi; Fu, Qihua

doi:10.1038/hortres.2016.14

Cited by 54 publications

(68 citation statements)

References 41 publications

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“…However, ribonucleic acids were degraded (Figure 1, gel bands corresponding to samples 11, 12 and 13). This is among the most widely used methods for RNA extraction, due to its simplicity and efficiency (RAMCHANDRA; STURM, 2010;CORBACHO et al, 2013;CHEN et al, 2016;ZHANG et al, 2016). However, in our study, the extracted material presented a low A 260 nm/A230 nm ratio, indicating the presence of contaminating polysaccharides or polyphenols in both the green and mature fruits.…”

Section: ) Cetyltrimethylammonium Bromide (Ctab)/ Polyvinylpyrrolidonecontrasting

confidence: 51%

High-quality total RNA isolation from melon (Cucumis melo L.) fruits rich in polysaccharides

Campos

Ayub

Etto

et al. 2017

SCA

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Melon, a member of the family Cucurbitaceae, is the fourth most important fruit in the world market and, on a volume basis, is Brazil's main fresh fruit export. Many molecular techniques used to understand the maturation of these fruits require high concentrations of highly purified RNA. However, melons are rich in polyphenolic compounds and polysaccharides, which interfere with RNA extraction. This study aimed to determine the most appropriate method for total RNA extraction from melon fruits. Six extraction buffers were tested: T1) guanidine thiocyanate/phenol/chloroform; T2) sodium azide/β-mercaptoethanol; T3) phenol/guanidine thiocyanate; T4) CTAB/PVP/β-mercaptoethanol; T5) SDS/ sodium perchlorate/PVP/β-mercaptoethanol, and T6) sarkosyl/PVP/guanidine thiocyanate, using the AxyPrep TM Multisource Total RNA Miniprep Kit. The best method for extracting RNA from both mature and green fruit was based on the SDS/PVP/β-mercaptoethanol buffer, because it rapidly generated a high quality and quantity of material. In general, higher amounts of RNA were obtained from green than mature fruits, probably due to the lower concentration of polysaccharides and water. The purified material can be used as a template in molecular techniques, such as microarrays, RT-PCR, and in the construction of cDNA and RNA-seq data. Key words: RNA extraction methods. RNA quality. Melon. ResumoO melão pertencente à família Cucurbitaceae é o quarto fruto mais importante no mercado mundial e a fruta mais exportada pelo Brasil. Muitas técnicas moleculares utilizadas para compreender a maturação destes frutos requerem o uso de RNA altamente purificado e em alta concentração. Entretanto, o elevado nível de compostos polifenólicos e polissacarídeos nos frutos tornam a extração de RNA um desafio. Este trabalho teve por objetivo determinar o método mais adequado para extração de RNA total em frutos de melão. Seis diferentes tampões de extração foram testados: T1) tiocianato de guanidina/ fenol/clorofórmio; T2) azida de sódio/β-mercaptoetanol; T3) fenol/tiocianato de guanidina, T4) CTAB/ PVP/β-mercaptoetanol, T5) SDS/perclorato de sódio/PVP/β-mercaptoetanol e T6) sarcosil/PVP/ tiocianato de guanidina associado com AxyPrep TM Multisource Total RNA Miniprep Kit. O melhor método para extração do RNA tanto de fruto verde quanto maduro foi o baseado no tampão SDS/

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Section: ) Cetyltrimethylammonium Bromide (Ctab)/ Polyvinylpyrrolidonecontrasting

confidence: 51%

High-quality total RNA isolation from melon (Cucumis melo L.) fruits rich in polysaccharides

Campos

Ayub

Etto

et al. 2017

SCA

View full text Add to dashboard Cite

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“…In fruit maturation, there is a gradual expression increase of CmSUS1 and decrease of CmSUS2 in the 'Yellow' melon. In non-climacteric melons, 'Hami' [51] and 'Piel del Sapo' [6], the same expression profile was observed. In 'Dulce' climacteric melon, the CmSUS1 was more expressed in young fruit, followed by near-silencing in mature fruit.…”

Section: Sucrose Metabolismmentioning

confidence: 59%

“…Sugar metabolism is an important pathway related to the sweetness of fruits and it is the most attractive characteristic for consumers [51]. Furthermore, studies have reported that sugars may serve as important signals that modulate a wide range of processes in plant physiology including fruit maturation [39,52,53].…”

Section: Sucrose Metabolismmentioning

confidence: 99%

Transcriptome profiling of non-climacteric ‘yellow’ melon during ripening: insights on sugar metabolism

et al. 2020

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Background: The non-climacteric 'Yellow' melon (Cucumis melo, inodorus group) is an economically important crop and its quality is mainly determined by the sugar content. Thus, knowledge of sugar metabolism and its related pathways can contribute to the development of new field management and post-harvest practices, making it possible to deliver better quality fruits to consumers.Results: The RNA-seq associated with RT-qPCR analyses of four maturation stages were performed to identify important enzymes and pathways that are involved in the ripening profile of non-climacteric 'Yellow' melon fruit focusing on sugar metabolism. We identified 895 genes 10 days after pollination (DAP)-biased and 909 genes 40 DAP-biased. The KEGG pathway enrichment analysis of these differentially expressed (DE) genes revealed that 'hormone signal transduction', 'carbon metabolism', 'sucrose metabolism', 'protein processing in endoplasmic reticulum' and 'spliceosome' were the most differentially regulated processes occurring during melon development. In the sucrose metabolism, five DE genes are up-regulated and 12 are down-regulated during fruit ripening. Conclusions:The results demonstrated important enzymes in the sugar pathway that are responsible for the sucrose content and maturation profile in non-climacteric 'Yellow' melon. New DE genes were first detected for melon in this study such as invertase inhibitor LIKE 3 (CmINH3), trehalose phosphate phosphatase (CmTPP1) and trehalose phosphate synthases (CmTPS5, CmTPS7, CmTPS9). Furthermore, the results of the protein-protein network interaction demonstrated general characteristics of the transcriptome of young and full-ripe melon and provide new perspectives for the understanding of ripening.

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“…In addition to the extensively enriched pathways in COS and LSW177, some DEGs were found to be involved in carotenoid formation, plant hormone signal transduction, sugar metabolism and cell wall metabolism and might have unique functions in cultivated watermelon during fruit ripening. These metabolic pathways are also important for fruit ripening in melon [20], tomato [21] and orange [19]. These pathways have the ability to create an organized metabolic association that possibly cooperates during fruit ripening in cultivated watermelon.…”

Section: Discussionmentioning

confidence: 99%

Comparative transcriptome analysis of two contrasting watermelon genotypes during fruit development and ripening

et al. 2017

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BackgroundWatermelon [Citrullus lanatus (Thunb.) Matsum. & Nakai] is an economically important crop with an attractive ripe fruit that has colorful flesh. Fruit ripening is a complex, genetically programmed process.ResultsIn this study, a comparative transcriptome analysis was performed to identify the regulators and pathways that are involved in the fruit ripening of pale-yellow-flesh cultivated watermelon (COS) and red-flesh cultivated watermelon (LSW177). We first identified 797 novel genes to extend the available reference gene set. Second, 3958 genes in COS and 3503 genes in LSW177 showed at least two-fold variation in expression, and a large number of these differentially expressed genes (DEGs) during fruit ripening were related to carotenoid biosynthesis, plant hormone pathways, and sugar and cell wall metabolism. Third, we noted a correlation between ripening-associated transcripts and metabolites and the key function of these metabolic pathways during fruit ripening.ConclusionThe results revealed several ripening-associated actions and provide novel insights into the molecular mechanisms underlying the regulation of watermelon fruit ripening.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-016-3442-3) contains supplementary material, which is available to authorized users.

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Transcriptome profiling of Cucumis melo fruit development and ripening

Cited by 54 publications

References 41 publications

High-quality total RNA isolation from melon (Cucumis melo L.) fruits rich in polysaccharides

High-quality total RNA isolation from melon (Cucumis melo L.) fruits rich in polysaccharides

Transcriptome profiling of non-climacteric ‘yellow’ melon during ripening: insights on sugar metabolism

Comparative transcriptome analysis of two contrasting watermelon genotypes during fruit development and ripening

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