Selection and validation of reference genes for studying stress-related agarwood formation of Aquilaria sinensis

Gao, Zhi‐Hui; Wei, Jianhe; Yang, Yun; Zhang, Zheng; Zhao, Wenting

doi:10.1007/s00299-012-1289-x

Cited by 53 publications

(36 citation statements)

References 42 publications

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“…Total RNA was extracted from all samples using the optimised method by Gao (2012). The plates with the thermocycler.…”

Section: Total Rna Isolation and Cdna Synthesismentioning

confidence: 99%

Analysis of Gene Expression and Quality Of

Wu¹,

Liu²,

Jf³

et al. 2017

JTFS

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Agarwood, precious resinous trunks or branches derived from Aquilaria plants, is widely used in incense and perfume. However, due to its low yield and high production cost, a novel stimulating method is required to produce agarwood rapidly and effectively. We studied the biologically agarwood-inducing technique (Agar-Bit) that achieved high yield and qualified production. In this study the gene expressions and chemical compositions in agarwood obtained from Aquilaria sinensis trees using Agar-Bit were characterised. Mechanically-stimulated agarwood was used as control. Some characteristic synthase genes expressed degrees and times differently compared with control. For Agar-Bit group expressions of biological synthase genes were upregulated in 12 hours, then downregulated except CHS1 (chalcone synthase genes) after stimulation. For mechanically-stimulated agarwood they were upregulated in 24 hours, then downregulated except HMGR (3-hydroxy-3-mythlglutaryl-CoA reductase). The chemical compositions of agarwood by Agar-Bit and control were investigated by total chromone and essential oil contents. Therefore, we concluded that Agar-Bit can markedly motivate some characteristic synthase gene expressions and produce unique and identical chromone chemicals in agarwood. These findings may supplement information on agarwood formation theories and provide genetic varieties during the process.

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“…Total RNA was extracted from all samples using the optimised method by Gao (2012). The plates with the thermocycler.…”

Section: Total Rna Isolation and Cdna Synthesismentioning

confidence: 99%

Analysis of Gene Expression and Quality Of

Wu¹,

Liu²,

Jf³

et al. 2017

JTFS

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“…Primers were designed using the Beacon Designer 7 software (Premier Biosoft, USA). Two housekeeping genes encoding for the ribosomal protein (RPL) and tubulin (TUA) were used as reference genes (Gao et al 2012). All primer sequences are listed in Table 1.…”

Section: Analysis Of Qrt-pcr Datamentioning

confidence: 99%

Temporal and spatial expression of terpene synthase genes associated with agarwood formation in Aquilaria malaccensis Lam

Azzarina

Mohamed

Lee

et al. 2016

N.Z. j. of For. Sci.

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Background: The diseased wood, agarwood, from the tropical tree taxa Aquilaria, is famed for its unique fragrance and medicinal values, mainly due to its richness in secondary metabolites such as the sesquiterpenes. The presence of sesquiterpenes in high numbers and amounts correlates with agarwood of high quality. Methods: To understand the synthesis of this important compound, we cloned two candidate genes in the terpenoid synthesis pathway from Aquilaria malaccensis Lam., a major agarwood tree species. The genes encoding sesquiterpene synthase (AmSesTPS1) and δ-guaiene synthase (AmGuaiS1) were successfully cloned from callus RNA, using specific primers derived from transcriptomic data, in a reverse transcription PCR reaction.

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“…It has been used across Asia, Middle East, and Europe for many purposes such as religious ceremony equipment, cosmetics, perfumes mixture, soaps, traditional medicines and other derived products (Okudera and Ito 2009;Gao et al 2012;Santoso 2014), which has made the price of good quality agarwood skyrocketing. Traditionally harvested from agarwood trees in natural forest, it is hard now to find it in natural forest due to overharvesting of the trees triggered by ever-increasing price and demand of agarwood has decreased the tree population substantially.…”

Section: Introductionmentioning

confidence: 99%

“…Traditionally harvested from agarwood trees in natural forest, it is hard now to find it in natural forest due to overharvesting of the trees triggered by ever-increasing price and demand of agarwood has decreased the tree population substantially. Agarwood trees belong to Thymelaeaceae family, which consists of several genera such as Aquilaria, Gyrinops, Wikstoremia, Enkleia, Gonystylus, Phaleria, etc. Their rare existence in natural habitat has made the all agarwood-producing species especially from genera Aquilaria and Gyrinops listed as vulnerable under the International Union for Conservation of Nature (IUCN) Red List (IUCN 1998), also as threatened in Appendix II of CITES (Gao et al 2012) since 2005. The international trade involving their products is under strict control.…”

Section: Introductionmentioning

confidence: 99%

“…Gao et al (2012) and Santoso (2014) explained that agarwood is a lump of brownish black resin produced in agarwood tree due to biotic stress from fungi infection (Tamuli et al 2008) activity inside the wood tissue. Pathogens infection causes some changes to wood anatomy properties (Siburian et al 2013;Gao et al 2012) such as odor, color, deposits in vessel element and the frequency of included phloem as well as enzymatic activity (Tamuli et al 2008) which shows that infected plants exhibited higher activity of pectinase, cellulose, peroxidase, and polyphenol oxidase. Agarwood resin quality is different according to its tree origin and influenced by the kind of attacked pathogens, as well as duration of pathogens infection.…”

Section: Introductionmentioning

confidence: 99%

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Development of protocols for genomic library construction of Agarwood (Aquilaria malaccensis)

Siregar

Suharsono

2017

Biodiversitas

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Abstract. Siregar UJ, Maulana MI, Suharsono UW. 2017. Development of protocols for genomic library construction of Agarwood (Aquilaria malaccensis). Biodiversitas 18: 1150Biodiversitas 18: -1158. Agarwood is one of non timber forest products (NTFP) which has high economic value. Diminishing agarwood trees in natural forest due to intensive harvesting has shifted the production paradigm to forest plantation. In order to support agarwood tree improvement, investigation on the agarwood tree genomes and genes involved in agarwood production is highly needed through genomic library construction. This research aimed at establishing cloning protocols for genomic library construction of agarwood tree (Aquilaria malaccensis) until sequencing process. Genomic DNA was isolated using DNeasy Plant Mini Kit from Qiagen, then was digested with EcoR1, and was ligated to pGem®-T Easy vector system before it was finally transformed and was cloned to E.coli strain DH5α. Confirmation of DNA inserts was done using PCR colony with universal primer of SP6 and T7, plasmid isolation and also PCR plasmid and plasmid DNA digestion used Quick Plasmid Miniprep Kit from Thermofisher. Cloned A. malaccensis DNA fragments were sequenced and BLAST at NCBI site. The cloning successfully obtained five white colonies which contain inserted A. malaccensis DNA fragments with the size of 136-225 bp. PCR colony, plasmid isolation, PCR plasmid, and plasmid DNA digestion had confirmed the existence of inserted A. malaccensis DNA genome inside the bacteria cells. Sequencing and BLAST showed that DNA inserts from colony number 6, 8, and 9 were not similar with A. malccensis sequence that was recorded in NCBI, indicating that the genomic region in this library construction is different from the genomic DNA sequences of A. malaccensis in NCBI.

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Selection and validation of reference genes for studying stress-related agarwood formation of Aquilaria sinensis

Abstract: Reference genes which are critical in gene expression studies are recommended for future molecular studies of stress response and agarwood production in the endangered Aquilaria and other tree species.

Cited by 53 publications

References 42 publications

Analysis of Gene Expression and Quality Of

Analysis of Gene Expression and Quality Of

Temporal and spatial expression of terpene synthase genes associated with agarwood formation in Aquilaria malaccensis Lam

Development of protocols for genomic library construction of Agarwood (Aquilaria malaccensis)

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