Comparative transcriptome analysis reveals candidate genes for the biosynthesis of natural insecticide in Tanacetum cinerariifolium View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2017-01-09

AUTHORS

Sana Khan, Swati Upadhyay, Feroz Khan, Sudeep Tandon, Rakesh Kumar Shukla, Sumit Ghosh, Vikrant Gupta, Suchitra Banerjee, Laiq ur Rahman

ABSTRACT

BACKGROUND: Pyrethrins are monoterpenoids and consist of either a chrysanthemic acid or pyrethric acid with a rethrolone moiety. Natural pyrethrins are safe and eco-friendly while possessing strong insecticidal properties. Despite such advantages of commercial value coming with the eco-friendly tag, most enzymes/genes involved in the pyrethrin biosynthesis pathway remain unidentified and uncharacterized. Since the flowers of Tanacetum cinerariifolium are rich in major pyrethrins, next generation transcriptome sequencing was undertaken to compare the flowers and the leaves of the plant de novo to identify differentially expressed transcripts and ascertain which among them might be involved in and responsible for the differential accumulation of pyrethrins in T. cinerariifolium flowers. RESULTS: In this first tissue specific transcriptome analysis of the non-model plant T. cinerariifolium, a total of 23,200,000 and 28,500,110 high quality Illumina next generation sequence reads, with a length of 101 bp, were generated for the flower and leaf tissue respectively. After functional enrichment analysis and GO based annotation using public protein databases such as UniRef, PFAM, SMART, KEGG and NR, 4443 and 8901 unigenes were identified in the flower and leaf tissue respectively. These could be assigned to 13344 KEGG pathways and the pyrethrin biosynthesis contextualized. The 2-C-methyl-D-erythritol 4-phosphate (MEP) pathway was involved in the biosynthesis of acid moiety of pyrethrin and this pathway predominated in the flowers as compared to the leaves. However, enzymes related to oxylipin biosynthesis were found predominantly in the leaf tissue, which suggested that major steps of pyrethrin biosynthesis occurred in the flowers. CONCLUSIONS: Transcriptome comparison between the flower and leaf tissue of T. cinerariifolium provided an elaborate list of tissue specific transcripts that was useful in elucidating the differences in the expression of the biosynthetic pathways leading to differential presence of pyrethrin in the flowers. The information generated on genes, pathways and markers related to pyrethrin biosynthesis in this study will be helpful in enhancing the production of these useful compounds for value added breeding programs. Related proteome comparison to overlay our transcriptome comparison can generate more relevant information to better understand flower specific accumulation of secondary metabolites in general and pyrethrin accumulation in particular. More... »

PAGES

54

Identifiers

URI

http://scigraph.springernature.com/pub.10.1186/s12864-016-3409-4

DOI

http://dx.doi.org/10.1186/s12864-016-3409-4

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1002702317

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/28068903


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26 schema:description BACKGROUND: Pyrethrins are monoterpenoids and consist of either a chrysanthemic acid or pyrethric acid with a rethrolone moiety. Natural pyrethrins are safe and eco-friendly while possessing strong insecticidal properties. Despite such advantages of commercial value coming with the eco-friendly tag, most enzymes/genes involved in the pyrethrin biosynthesis pathway remain unidentified and uncharacterized. Since the flowers of Tanacetum cinerariifolium are rich in major pyrethrins, next generation transcriptome sequencing was undertaken to compare the flowers and the leaves of the plant de novo to identify differentially expressed transcripts and ascertain which among them might be involved in and responsible for the differential accumulation of pyrethrins in T. cinerariifolium flowers. RESULTS: In this first tissue specific transcriptome analysis of the non-model plant T. cinerariifolium, a total of 23,200,000 and 28,500,110 high quality Illumina next generation sequence reads, with a length of 101 bp, were generated for the flower and leaf tissue respectively. After functional enrichment analysis and GO based annotation using public protein databases such as UniRef, PFAM, SMART, KEGG and NR, 4443 and 8901 unigenes were identified in the flower and leaf tissue respectively. These could be assigned to 13344 KEGG pathways and the pyrethrin biosynthesis contextualized. The 2-C-methyl-D-erythritol 4-phosphate (MEP) pathway was involved in the biosynthesis of acid moiety of pyrethrin and this pathway predominated in the flowers as compared to the leaves. However, enzymes related to oxylipin biosynthesis were found predominantly in the leaf tissue, which suggested that major steps of pyrethrin biosynthesis occurred in the flowers. CONCLUSIONS: Transcriptome comparison between the flower and leaf tissue of T. cinerariifolium provided an elaborate list of tissue specific transcripts that was useful in elucidating the differences in the expression of the biosynthetic pathways leading to differential presence of pyrethrin in the flowers. The information generated on genes, pathways and markers related to pyrethrin biosynthesis in this study will be helpful in enhancing the production of these useful compounds for value added breeding programs. Related proteome comparison to overlay our transcriptome comparison can generate more relevant information to better understand flower specific accumulation of secondary metabolites in general and pyrethrin accumulation in particular.
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34 Comparative transcriptome analysis
35 GO
36 Illumina next generation sequence
37 KEGG
38 KEGG pathways
39 Pfam
40 Smart
41 T. cinerariifolium
42 Tanacetum cinerariifolium
43 UniRef
44 accumulation
45 acid
46 acid moiety
47 advantages
48 analysis
49 annotation
50 biosynthesis
51 biosynthesis pathway
52 biosynthetic pathway
53 breeding programs
54 candidate genes
55 chrysanthemic acid
56 cinerariifolium
57 cinerariifolium flowers
58 commercial value
59 comparison
60 compounds
61 database
62 differences
63 differential accumulation
64 differential presence
65 eco
66 eco-friendly tag
67 elaborate list
68 enrichment analysis
69 erythritol
70 expression
71 first tissue specific transcriptome analysis
72 flower specific accumulation
73 flowers
74 functional enrichment analysis
75 generation sequence
76 generation transcriptome sequencing
77 genes
78 high quality Illumina next generation sequence
79 information
80 insecticidal properties
81 insecticides
82 leaf tissue
83 leaves
84 length
85 list
86 major pyrethrins
87 major step
88 markers
89 metabolites
90 methyl
91 moiety
92 monoterpenoids
93 natural insecticides
94 natural pyrethrins
95 next-generation sequences
96 next-generation transcriptome sequencing
97 non-model plant T. cinerariifolium
98 novo
99 oxylipin biosynthesis
100 pathway
101 plant T. cinerariifolium
102 plants
103 presence
104 production
105 program
106 properties
107 protein database
108 proteome comparison
109 public protein databases
110 pyrethric acid
111 pyrethrin biosynthesis
112 pyrethrin biosynthesis pathway
113 pyrethrins
114 quality Illumina next generation sequence
115 relevant information
116 rethrolone moiety
117 secondary metabolites
118 sequence
119 sequencing
120 specific accumulation
121 specific transcriptome analyses
122 specific transcripts
123 step
124 strong insecticidal properties
125 study
126 such advantages
127 tags
128 tissue
129 tissue-specific transcriptome analysis
130 tissue-specific transcripts
131 total
132 transcriptome analysis
133 transcriptome comparison
134 transcriptome sequencing
135 transcripts
136 unigenes
137 useful compounds
138 values
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