Analysis of floral transcription factors from Lycoris longituba

He, Qiuling; Cui, Shao-Jie; Gu, Jianlei; Zhang, He; Wang, Mingxiu; Zhou, Yan; Zhang, Liang; Huang, Minren

doi:10.1016/j.ygeno.2010.04.002

Cited by 13 publications

(15 citation statements)

References 55 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Two of the genes most closely related to AtqMADS1 in Fig. 2d (Lyl-MADS9 and LylMADS15) from Lycoris longituba were also shown to increase in expression as flowers matured, however, individual floral tissues were not tested (He et al 2010b). The highly specific and strong expression of a SEPALLATA-like gene agrees with their proposed biological function of interaction with other MADS-box proteins ).…”

Section: Discussionmentioning

confidence: 99%

Agave tequilana MADS genes show novel expression patterns in meristems, developing bulbils and floral organs

2011

View full text Add to dashboard Cite

Agave tequilana is a monocarpic perennial species that flowers after 5-8 years of vegetative growth signaling the end of the plant's life cycle. When fertilization is unsuccessful, vegetative bulbils are induced on the umbels of the inflorescence near the bracteoles from newly formed meristems. Although the regulation of inflorescence and flower development has been described in detail for monocarpic annuals and polycarpic species, little is known at the molecular level for these processes in monocarpic perennials, and few studies have been carried out on bulbils. Histological samples revealed the early induction of umbel meristems soon after the initiation of the vegetative to inflorescence transition in A. tequilana. To identify candidate genes involved in the regulation of floral induction, a search for MADS-box transcription factor ESTs was conducted using an A. tequilana transcriptome database. Seven different MIKC MADS genes classified into 6 different types were identified based on previously characterized A. thaliana and O. sativa MADS genes and sequences from non-grass monocotyledons. Quantitative real-time PCR analysis of the seven candidate MADS genes in vegetative, inflorescence, bulbil and floral tissues uncovered novel patterns of expression for some of the genes in comparison with orthologous genes characterized in other species. In situ hybridization studies using two different genes showed expression in specific tissues of vegetative meristems and floral buds. Distinct MADS gene regulatory patterns in A. tequilana may be related to the specific reproductive strategies employed by this species.

show abstract

Section: Discussionmentioning

confidence: 99%

Agave tequilana MADS genes show novel expression patterns in meristems, developing bulbils and floral organs

2011

View full text Add to dashboard Cite

show abstract

“…Sequences that resulted in peptides longer than 50 amino acids were used to predict TFs. TF prediction was carried out according to He et al 57 with some modifications. The HMM profiles of 75 TF families were downloaded from the Drosophila Transcription Factor Database (http://www.flytf.org/) and PFAM 58.…”

Section: Methodsmentioning

confidence: 99%

Tissue-Specific Transcriptome Profiling of Plutella Xylostella Third Instar Larval Midgut

Xie¹,

Lei²,

Fu³

et al. 2012

Int. J. Biol. Sci.

View full text Add to dashboard Cite

The larval midgut of diamondback moth, Plutella xylostella, is a dynamic tissue that interfaces with a diverse array of physiological and toxicological processes, including nutrient digestion and allocation, xenobiotic detoxification, innate and adaptive immune response, and pathogen defense. Despite its enormous agricultural importance, the genomic resources for P. xylostella are surprisingly scarce. In this study, a Bt resistant P. xylostella strain was subjected to the in-depth transcriptome analysis to identify genes and gene networks putatively involved in various physiological and toxicological processes in the P. xylostella larval midgut.Using Illumina deep sequencing, we obtained roughly 40 million reads containing approximately 3.6 gigabases of sequence data. De novo assembly generated 63,312 ESTs with an average read length of 416bp, and approximately half of the P. xylostella sequences (45.4%, 28,768) showed similarity to the non-redundant database in GenBank with a cut-off E-value below 10-5. Among them, 11,092 unigenes were assigned to one or multiple GO terms and 16,732 unigenes were assigned to 226 specific pathways. In-depth analysis indentified genes putatively involved in insecticide resistance, nutrient digestion, and innate immune defense. Besides conventional detoxification enzymes and insecticide targets, novel genes, including 28 chymotrypsins and 53 ABC transporters, have been uncovered in the P. xylostella larval midgut transcriptome; which are potentially linked to the Bt toxicity and resistance. Furthermore, an unexpectedly high number of ESTs, including 46 serpins and 7 lysozymes, were predicted to be involved in the immune defense.As the first tissue-specific transcriptome analysis of P. xylostella, this study sheds light on the molecular understanding of insecticide resistance, especially Bt resistance in an agriculturally important insect pest, and lays the foundation for future functional genomics research. In addition, current sequencing effort greatly enriched the existing P. xylostella EST database, and makes RNAseq a viable option in the future genomic analysis.

show abstract

“…So far, the number of ESTs that are available from Lycoris is less than 9,000. Recently, by sequencing clones from three non-normalized cDNA libraries, 32,521 EST sequences were obtained and most of them were used for floral transcription factors prediction from Lycoris longituba [64]. Therefore, this transcriptome dataset provides a useful resource for future analyses of genes related to Amaryllidaceae alkaloids synthesis.…”

Section: Pyrosequencing Using Gs Flx Titanium Platform and Reads Assementioning

confidence: 99%

“…Additionally, to date, there are only less than 9,000 ESTs available for Lycoris. And limited by the availability of genomic information, studies of Lycoris have mainly focused on karyotypes analysis [1,3,58,59], morphology [60], medicine [11,[13][14][15], and molecular aspect [2,[61][62][63][64]. Hence, determination of the genetic pathways and specific genes involved in Amaryllidaceae alkaloids biosynthesis and some other aspects of Lycoris could be beneficial for humans and enrich our knowledge and understanding of functional genomics and biological research.…”

Section: Introductionmentioning

confidence: 99%

De novo Sequence Assembly and Characterization of Lycoris aurea Transcriptome Using GS FLX Titanium Platform of 454 Pyrosequencing

Ren

Jiang

et al. 2013

PLoS ONE

View full text Add to dashboard Cite

Background Lycoris aurea, also called Golden Magic Lily, is an ornamentally and medicinally important species of the Amaryllidaceae family. To date, the sequencing of its whole genome is unavailable as a non-model organism. Transcriptomic information is also scarce for this species. In this study, we performed de novo transcriptome sequencing to produce the first comprehensive expressed sequence tag (EST) dataset for L. aurea using high-throughput sequencing technology.Methodology and Principal FindingsTotal RNA was isolated from leaves with sodium nitroprusside (SNP), salicylic acid (SA), or methyl jasmonate (MeJA) treatment, stems, and flowers at the bud, blooming, and wilting stages. Equal quantities of RNA from each tissue and stage were pooled to construct a cDNA library. Using 454 pyrosequencing technology, a total of 937,990 high quality reads (308.63 Mb) with an average read length of 329 bp were generated. Clustering and assembly of these reads produced a non-redundant set of 141,111 unique sequences, comprising 24,604 contigs and 116,507 singletons. All of the unique sequences were involved in the biological process, cellular component and molecular function categories by GO analysis. Potential genes and their functions were predicted by KEGG pathway mapping and COG analysis. Based on our sequence analysis and published literatures, many putative genes involved in Amaryllidaceae alkaloids synthesis, including PAL, TYDC OMT, NMT, P450, and other potentially important candidate genes, were identified for the first time in this Lycoris. Furthermore, 6,386 SSRs and 18,107 high-confidence SNPs were identified in this EST dataset.ConclusionsThe transcriptome provides an invaluable new data for a functional genomics resource and future biological research in L. aurea. The molecular markers identified in this study will provide a material basis for future genetic linkage and quantitative trait loci analyses, and will provide useful information for functional genomic research in future.

show abstract

Analysis of floral transcription factors from Lycoris longituba

Cited by 13 publications

References 55 publications

Agave tequilana MADS genes show novel expression patterns in meristems, developing bulbils and floral organs

Agave tequilana MADS genes show novel expression patterns in meristems, developing bulbils and floral organs

Tissue-Specific Transcriptome Profiling of Plutella Xylostella Third Instar Larval Midgut

De novo Sequence Assembly and Characterization of Lycoris aurea Transcriptome Using GS FLX Titanium Platform of 454 Pyrosequencing

Contact Info

Product

Resources

About