Research Output 2006 2019

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2019

Alternative Oxidase (AOX) Senses Stress Levels to Coordinate Auxin-Induced Reprogramming From Seed Germination to Somatic Embryogenesis—A Role Relevant for Seed Vigor Prediction and Plant Robustness

Mohanapriya, G., Bharadwaj, R., Noceda, C., Costa, J. H., Kumar, S. R., Sathishkumar, R., Thiers, K. L. L., Santos Macedo, E., Silva, S., Annicchiarico, P., Groot, S. P. C., Kodde, J., Kumari, A., Gupta, K. J. & Arnholdt-Schmitt, B., 20 Sep 2019, In : Frontiers in Plant Science. 10, 1134.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
vigor
auxins
seed germination
somatic embryogenesis
prediction
1 Citation (Scopus)

CENTRORADIALIS Interacts with FLOWERING LOCUS T-Like Genes to Control Floret Development and Grain Number

Bi, X., van Esse, W., Mulki, M. A., Kirschner, G., Zhong, J., Simon, R. & von Korff, M., 1 Jun 2019, In : Plant Physiology. 180, 2, p. 1013-1030

Research output: Contribution to journalArticleAcademicpeer-review

florets
Hordeum
inflorescences
Inflorescence
Genes
3 Citations (Scopus)

Comprehensive phenotyping reveals interactions and functions of Arabidopsis thaliana TCP genes in yield determination

van Es, S. W., van der Auweraert, E., Rodrigues da Silveira, S., Angenent, G. C., van Dijk, A. D. J. & Immink, G. H., 22 Mar 2019, In : The Plant Journal.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Arabidopsis
seed yield
Arabidopsis thaliana
vegetative growth
phenotype
1 Citation (Scopus)

CRISPR/Cas inactivation of RECQ4 increases homeologous crossovers in an interspecific tomato hybrid

de Maagd, R. A., Loonen, A., Chouaref, J., Pelé, A., Meijer-Dekens, F., Fransz, P. & Bai, Y., 4 Sep 2019, In : Plant Biotechnology Journal.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Clustered Regularly Interspaced Short Palindromic Repeats
Lycopersicon esculentum
inactivation
tomatoes
wild relatives
1 Citation (Scopus)
Protein-protein Interaction
Contact
Proteins
Protein
Mutation
8 Citations (Scopus)

Long-read annotation: Automated eukaryotic genome annotation based on long-read cDNA sequencing

Cook, D. E., Valle-Inclan, J. E., Pajoro, A., Rovenich, H., Thomma, B. P. H. J. & Faino, L., 1 Jan 2019, In : Plant Physiology. 179, 1, p. 38-54 17 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
complementary DNA
DNA Sequence Analysis
sequence analysis
Complementary DNA
Genome
1 Citation (Scopus)

Morphological and Molecular Characterization of Orchid Fruit Development

Dirks-Mulder, A., Ahmed, I., uit het Broek, M., Krol, L., Menger, N., Snier, J., van Winzum, A., de Wolf, A., van 't Wout, M., Zeegers, J. J., Butôt, R., Heijungs, R., Van Heuven, B. J., Kruizinga, J., Langelaan, R., Smets, E. F., Star, W., Bemer, M. & Gravendeel, B., 19 Feb 2019, In : Frontiers in Plant Science. 10, 18 p., 137.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
fruiting
fruits
dehiscence
Angiospermae
seed shattering
6 Citations (Scopus)

Re-evaluation of transcription factor function in tomato fruit development and ripening with CRISPR/Cas9-mutagenesis

Wang, R., da Rocha Tavano, E. C., Lammers, M., Martinelli, A. P., Angenent, G. C. & de Maagd, R. A., 8 Feb 2019, In : Scientific Reports. 9, 1, 1696.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Clustered Regularly Interspaced Short Palindromic Repeats
Lycopersicon esculentum
Mutagenesis
Fruit
Transcription Factors

Seed maturation and post-harvest ripening negatively affect arabidopsis somatic embryogenesis

Wu, H., Chen, B., Fiers, M., Wróbel-Marek, J., Kodde, J., Groot, S. P. C., Angenent, G., Feng, H., Bentsink, L. & Boutilier, K., Oct 2019, In : Plant Cell, Tissue and Organ Culture. 139, 1, p. 17-27

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
seed maturation
somatic embryogenesis
ripening
Arabidopsis
embryo (plant)
3 Citations (Scopus)

The Chromatin-Associated Protein PWO1 Interacts with Plant Nuclear Lamin-like Components to Regulate Nuclear Size

Mikulski, P., Hohenstatt, M. L., Farrona, S., Smaczniak, C., Stahl, Y., Kalyanikrishna, Kaufmann, K., Angenent, G. & Schubert, D., 1 May 2019, In : The Plant Cell. 31, 5, p. 1141-1154 14 p.

Research output: Contribution to journalArticleAcademicpeer-review

Lamins
Nuclear Lamina
laminae (animals)
Chromatin
chromatin
5 Citations (Scopus)

The SAUR gene family: the plant’s toolbox for adaptation of growth and development

Stortenbeker, N. & Bemer, M., 1 Jan 2019, In : Journal of Experimental Botany. 70, 1, p. 17-27

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Plant Genes
Indoleacetic Acids
plant adaptation
Growth and Development
auxins
2018
3 Citations (Scopus)

A molecular network for functional versatility of HECATE transcription factors

Gaillochet, C., Jamge, S., van der Wal, F., Angenent, G., Immink, R. & Lohmann, J. U., 1 Jul 2018, In : Plant Journal. 95, 1, p. 57-70

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
gynoecium
Transcription Factors
transcription factors
Meristem
shoot meristems
5 Citations (Scopus)

Arabidopsis thaliana ambient temperature responsive lncRNAs

Severing, E., Faino, L., Jamge, S., Busscher, M., Kuijer-Zhang, Y., Bellinazzo, F., Busscher-Lange, J., Fernández, V., Angenent, G. C., Immink, R. G. H. & Pajoro, A., 13 Jul 2018, In : BMC Plant Biology. 18, 1, 145.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
ambient temperature
Arabidopsis thaliana
Arabidopsis
flowering
genome

A seed treatment to prevent shoot apical meristem arrest in Brassica oleracea

de Jonge, J., Goffman, F. D., Kodde, J., Angenent, G. C. & Groot, S. P. C., 26 Jan 2018, In : Scientia Horticulturae. 228, p. 76-80

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
shoot meristems
apical meristems
Brassica oleracea
seed treatment
seeds
4 Citations (Scopus)

Comparative analysis of binding patterns of MADS-domain proteins in Arabidopsis thaliana

Aerts, N., de Bruijn, S., van Mourik, H., Angenent, G. C. & van Dijk, A. D. J., 25 Jun 2018, In : BMC Plant Biology. 18, 1, 131.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Arabidopsis thaliana
transcription factors
DNA-binding domains
protein binding
ecotypes
3 Citations (Scopus)
cauliflower
ambient temperature
gene
curds (plant)
flowering
5 Citations (Scopus)

Engineering storage capacity for volatile sesquiterpenes in Nicotiana benthamiana leaves

Delatte, T. L., Scaiola, G., Molenaar, J., de Sousa Farias, K., Alves Gomes Albertti, L., Busscher, J., Verstappen, F., Carollo, C., Bouwmeester, H. & Beekwilder, J., Dec 2018, In : Plant Biotechnology Journal. 16, 12, p. 1997-2006

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Nicotiana benthamiana
Sesquiterpenes
sesquiterpenoids
lipid bodies
Tobacco
21 Citations (Scopus)

Genetic control of meristem arrest and life span in Arabidopsis by a FRUITFULL-APETALA2 pathway

Balanzà, V., Martínez-Fernández, I., Sato, S., Yanofsky, M. F., Kaufmann, K., Angenent, G. C., Bemer, M. & Ferrándiz, C., 8 Feb 2018, In : Nature Communications. 9, 1, 565.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
life span
Meristem
fruits
Fruits
Arabidopsis
2 Citations (Scopus)

Microbiome-related metabolite changes in gut tissue, cecum content and feces of rats treated with antibiotics

Behr, C., Sperber, S., Jiang, X., Strauss, V., Kamp, H., Walk, T., Herold, M., Beekmann, K., Rietjens, I. M. C. M. & van Ravenzwaay, B., 15 Sep 2018, In : Toxicology and Applied Pharmacology. 355, p. 198-210

Research output: Contribution to journalArticleAcademicpeer-review

Cecum
Microbiota
Metabolites
Feces
Rats
9 Citations (Scopus)

Novel functions of the Arabidopsis transcription factor TCP5 in petal development and ethylene biosynthesis

van Es, S. W., Silveira, S. R., Rocha, D. I., Bimbo, A., Martinelli, A. P., Dornelas, M. C., Angenent, G. C. & Immink, G. H., Jun 2018, In : The Plant Journal. 94, 5, p. 867-879

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Arabidopsis
ethylene production
corolla
Transcription Factors
transcription factors

PISTILLATA paralogs in Tarenaya hassleriana have diverged in interaction specificity

de Bruijn, S., Zhao, T., Muiño, J. M., Schranz, E. M., Angenent, G. C. & Kaufmann, K., 22 Dec 2018, In : BMC Plant Biology. 18, 1, 368.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Brassicaceae
Cleomaceae
transposition (genetics)
Angiospermae
amino acid sequences
2 Citations (Scopus)

Rapid loss of seed viability in ex situ conserved wheat and barley at 4°C as compared to −20°C storage

van Treuren, R., Bas, N., Kodde, J., Groot, S. P. C. & Kik, C., 25 Jun 2018, In : Conservation Physiology. 6, 1, coy033.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Hordeum
barley
Triticum
Seeds
viability
3 Citations (Scopus)

Role of Tulipa gesneriana TEOSINTE BRANCHED1 (TgTB1) in the control of axillary bud outgrowth in bulbs

Moreno-Pachon, N. M., Mutimawurugo, M. C., Heynen, E., Sergeeva, L., Benders, A., Blilou, I., Hilhorst, H. W. M. & Immink, R. G. H., Jun 2018, In : Plant Reproduction. 31, 2, p. 145-157

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Tulipa
Tulipa gesneriana
bulbs
buds
dormancy
1 Citation (Scopus)

Seed dormancy release accelerated by elevated partial pressure of oxygen is associated with DOG loci

Buijs, G., Kodde, J., Groot, S. P. C. & Bentsink, L., 27 Jun 2018, In : Journal of Experimental Botany. 69, 15, p. 3601-3608

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Plant Dormancy
Partial Pressure
seed dormancy
after-ripening
Oxygen
2017
46 Citations (Scopus)

Abscisic acid signaling is controlled by a BRANCHED1/HD-ZIP i cascade in Arabidopsis axillary buds

Gonzalez-Grandio, E., Pajoro, A., Franco-Zorrilla, J. M., Tarancon, C., Immink, R. G. H. & Cubas, P., 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 2, p. E245-E254

Research output: Contribution to journalArticleAcademicpeer-review

leucine zipper
homeodomain proteins
abscisic acid
Zea
buds

A cautionary note on the use of chromosome conformation capture in plants

Jamge, S., Stam, M., Angenent, G. C. & Immink, R. G. H., 16 Nov 2017, In : Plant Methods. 13, 1, 101.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Chromatin
Chromosomes
chromosomes
chromatin
Suppressor Genes
3 Citations (Scopus)

A plant-based chemical genomics screen for the identification of flowering inducers

Fiers, M., Hoogenboom, J., Brunazzi, A., Wennekes, T., Angenent, G. C. & Immink, R. G. H., 3 Oct 2017, In : Plant Methods. 13, 9 p., 78.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Genomics
Arabidopsis
Salicylic Acid
flowering
genomics

A transcriptional view on somatic embryogenesis

Horstman, A., Bemer, M. & Boutilier, K. A., 1 Aug 2017, In : Regeneration. 4, 4, p. 201-216

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
somatic embryogenesis
transcription factors
embryo (plant)
chromatin
hormones
30 Citations (Scopus)

Cross-Family Transcription Factor Interactions: An Additional Layer of Gene Regulation

Bemer, M., van Dijk, A-J., Immink, R. G. H. & Angenent, G. C., 2017, In : Trends in Plant Science. 22, 1, p. 66-80

Research output: Contribution to journalArticleAcademicpeer-review

transcription factors
genes
gene expression
protein-protein interactions
DNA
14 Citations (Scopus)

Differences in DNA binding specificity of floral homeotic protein complexes predict organ-specific target genes

Smaczniak, C., Muiño, J. M., Chen, D., Angenent, G. C. & Kaufmann, K., 2017, In : The Plant Cell. 29, 8, p. 1822-1835

Research output: Contribution to journalArticleAcademicpeer-review

homeodomain proteins
Homeodomain Proteins
MADS Domain Proteins
DNA
Genes
8 Citations (Scopus)

Divergent regulation of Arabidopsis SAUR genes: A focus on the SAUR10-clade

van Mourik, H., van Dijk, A. D. J., Stortenbeker, N., Angenent, G. C. & Bemer, M., 19 Dec 2017, In : BMC Plant Biology. 17, 245.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
auxins
Arabidopsis
RNA
genes
transcription factors

Don't waste your efforts

Groot, S. P. C., 8 Oct 2017, In : Prophyta - Focus on Europe. p. 32-34

Research output: Contribution to journalArticleProfessional

Open Access
seed quality
crop-weed competition
nutrient uptake
root systems
seedlings
22 Citations (Scopus)

FRUITFULL controls SAUR10 expression and regulates Arabidopsis growth and architecture

Bemer, M., van Mourik, H., Muiño, J. M., Ferrándiz, C., Kaufmann, K. & Angenent, G. C., 15 Jun 2017, In : Journal of Experimental Botany. 68, 13, p. 3391-3403

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Indoleacetic Acids
Arabidopsis
auxins
branches
RNA
49 Citations (Scopus)

Genetic architecture of plant stress resistance: multi-trait genome-wide association mapping

Thoen, H. P. M., Davila Olivas, N. H., Kloth, K. J., Coolen, S., Huang, P., Aarts, M. G. M., Molenaar, J. A., Bakker, J., Bouwmeester, H. J., Broekgaarden, C., Bucher, J., Busscher-Lange, J., Cheng, X., van Dijk-Fradin, E. F., Jongsma, M. A., Julkowska, M. M., Keurentjes, J. J. B., Ligterink, W., Pieterse, C. M. J., Ruyter-Spira, C. P. & 13 others, Smant, G., van Schaik, C. C., van Wees, S. C. M., Visser, R. G. F., Voorrips, R. E., Vosman, B., Vreugdenhil, D., Warmerdam, S., Wiegers, G. L., van Heerwaarden, J., Kruijer, W. T., van Eeuwijk, F. A. & Dicke, M., 2017, In : New Phytologist. 213, 3, p. 1346-1362

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
plant stress
stress tolerance
chromosome mapping
Genome
single nucleotide polymorphism
26 Citations (Scopus)

Histone H3 lysine 36 methylation affects temperature-induced alternative splicing and flowering in plants

Pajoro, A., Severing, E., Angenent, G. C. & Immink, R. G. H., 2017, In : Genome Biology. 18, 12 p., 102.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
alternative splicing
Alternative Splicing
methylation
histones
Histones
6 Citations (Scopus)

Molecular regulation of temperature-dependent floral induction in Tulipa gesneriana

Leeggangers, M., Nijveen, H., Bigas, J. N., Hilhorst, H. W. M. & Immink, R. G. H., 2017, In : Plant Physiology. 173, 3, p. 1904-1919

Research output: Contribution to journalArticleAcademicpeer-review

Tulipa
Tulipa gesneriana
Temperature
flowering
Arabidopsis
21 Citations (Scopus)

Phylogenomic Synteny Network Analysis of MADS-Box Transcription Factor Genes Reveals Lineage-Specific Transpositions, Ancient Tandem Duplications, and Deep Positional Conservation

Zhao, T., Holmer, R., de Bruijn, S. A., Angenent, G. C., van den Burg, H. A. & Schranz, M. E., 7 Jul 2017, In : The Plant Cell. 29, 6, p. 1278-1292

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Synteny
transposition (genetics)
Transcription Factors
transcription factors
Genes
11 Citations (Scopus)

Re-sequencing transgenic plants revealed rearrangements at T-DNA inserts, and integration of a short T-DNA fragment, but no increase of small mutations elsewhere

Schouten, H. J., van de Geest, H., Papadimitriou, S., Bemer, M., Schaart, J. G., Smulders, R., Perez, G. S. & Schijlen, E., Mar 2017, In : Plant Cell Reports. 36, 3, p. 493-504

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
transgenic plants
mutation
DNA
genome
Arabidopsis thaliana
12 Citations (Scopus)

SIEVE ELEMENT-LINING CHAPERONE1 restricts aphid feeding on arabidopsis during heat stress

Kloth, K. J., Busscher-Lange, J., Wiegers, G. L., Kruijer, W., Buijs, G., Meyer, R. C., Albrectsen, B. R., Bouwmeester, H. J., Dicke, M. & Jongsma, M. A., 1 Oct 2017, In : Plant Cell. 29, 10, p. 2450-2464

Research output: Contribution to journalArticleAcademicpeer-review

Phloem
Aphids
sieve elements
Arabidopsis
phloem
19 Citations (Scopus)

Splicing-related genes are alternatively spliced upon changes in ambient temperatures in plants

Verhage, D. S. L., Severing, E., Bucher, J., Lammers, M., Busscher-Lange, J., Bonnema, A. B., Rodenburg, N., Proveniers, M. C. G., Angenent, G. C. & Immink, G. H., 2017, In : PLoS ONE. 12, 3, e0172950.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Recombinant DNA
alternative splicing
ambient temperature
Genes
Temperature
34 Citations (Scopus)

The BABY BOOM transcription factor activates the LEC1-ABI3-FUS3-LEC2 network to induce somatic embryogenesis

Horstman, A., Li, M., Heidmann, I., Weemen, M., Chen, B., Muino, J. M., Angenent, G. C. & Boutilier, K., Oct 2017, In : Plant Physiology. 175, 2, p. 848-857

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Abscisic Acid
somatic embryogenesis
Embryonic Development
abscisic acid
totipotency
12 Citations (Scopus)

The origin of floral organ identity quartets

Ruelens, P., Zhang, Z., van Mourik, H., Maere, S., Kaufmann, K. & Geuten, K., 2017, In : The Plant Cell. 29, 2, p. 229-242

Research output: Contribution to journalArticleAcademicpeer-review

MADS Domain Proteins
Gymnosperms
Angiosperms
Angiospermae
flowers
3 Citations (Scopus)

The physiological and neuroendocrine correlates of hunger in the Red Junglefowl (Gallus gallus)

Lees, J. J., Lindholm, C., Batakis, P., Busscher, M. & Altimiras, J., 1 Dec 2017, In : Scientific Reports. 7, 1, 17984.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Gallus gallus
hunger
pro-opiomelanocortin
Agouti
neuropeptide Y
12 Citations (Scopus)

Visualization of BRI1 and SERK3/BAK1 nanoclusters in Arabidopsis roots

Hutten, S. J., Hamers, D. S., Den Toorn, M. A., Van Esse, W., Nolles, A., Bücherl, C. A., De Vries, S. C., Hohlbein, J. & Borst, J., 2017, In : PLoS ONE. 12, 1, e0169905.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Brassinosteroids
brassinosteroids
Nanoclusters
somatic embryogenesis
Arabidopsis
2016
8 Citations (Scopus)

Altered expression of the bZIP transcription factor DRINK ME affects growth and reproductive development in Arabidopsis thaliana

Lozano-Sotomayor, P., Chávez Montes, R. A., Silvestre-Vañó, M., Herrera-Ubaldo, H., Greco, R., Pablo-Villa, J., Galliani, B. M., Diaz-Ramirez, D., Weemen, M. & Boutilier, K., 1 Nov 2016, In : The Plant Journal. 88, 3, p. 437-451 15 p.

Research output: Contribution to journalArticleAcademicpeer-review

Basic-Leucine Zipper Transcription Factors
Meristem
Growth and Development
Arabidopsis
meristems
27 Citations (Scopus)

AtWRKY22 promotes susceptibility to aphids and modulates salicylic acid and jasmonic acid signalling

Kloth, K. J., Wiegers, G. L., Busscher-Lange, J., van Haarst, J. C., Kruijer, W. T., Bouwmeester, H. J., Dicke, M. & Jongsma, M. A., 23 Apr 2016, In : Journal of Experimental Botany. 67, 1, p. 3383-3396

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Aphids
Salicylic Acid
jasmonic acid
salicylic acid
Aphidoidea
13 Citations (Scopus)

Barley seed aging: Genetics behind the dry elevated pressure of oxygen aging and moist controlled deterioration

Nagel, M., Kodde, J., Pistrick, S., Mascher, M., Börner, A. & Groot, S. P. C., 2016, In : Frontiers in Plant Science. 7, 388.

Research output: Contribution to journalArticleAcademicpeer-review

deterioration
barley
oxygen
seeds
quantitative trait loci

Chromatin and epigenetics in all their states: Meeting report of the first conference on Epigenetic and Chromatin Regulation of Plant Traits - January 14 – 15, 2016 - Strasbourg, France

Bey, T., Jamge, S., Klemme, S., Komar, D. N., Le Gall, S., Mikulski, P., Schmidt, M., Zicola, J. & Berr, A., 2016, In : Epigenetics. 11, 8, p. 625-634

Research output: Contribution to journalArticleAcademicpeer-review

Epigenomics
Chromatin
France
Atmosphere
Research
7 Citations (Scopus)

Cross-talk between sporophyte and gametophyte generations is promoted by CHD3 chromatin remodelers in Arabidopsis thaliana

Carter, B., Henderson, J. T., Svedin, E., Fiers, M. A., McCarthy, K., Smith, A., Guo, C., Bishop, B., Zhang, H., Riksen-Bruinsma, T., Shockley, A., Dilkes, B. P., Boutilier, K. A. & Ogas, J., 2016, In : Genetics. 203, 2, p. 817-829

Research output: Contribution to journalArticleAcademicpeer-review

Arabidopsis
Chromatin
Seeds
Diploidy
Ovule
6 Citations (Scopus)

Elucidating and mining the Tulipa and Lilium transcriptomes

Moreno-Pachon, N. M., Leeggangers, M., Nijveen, H., Severing, E., Hilhorst, H. & Immink, R. G. H., 2016, In : Plant Molecular Biology. 92, 3, p. 249-261

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Tulipa
Lilium
Transcriptome
transcriptome
Genome