scholarly journals Identification of developmentally important genes in Silene latifolia through chemical genetics and transcriptome profiling

2021 ◽  
Author(s):  
Václav Bačovský ◽  
Radim Čegan ◽  
Eva Tihlaříková ◽  
Vilém Neděla ◽  
Vojtěch Hudzieczek ◽  
...  

AbstractDioecious plants possess diverse sex determination systems and unique mechanisms of reproductive organ development; however, little is known about how sex-linked genes shape the expression of regulatory cascades that lead to developmental differences between sexes. In Silene latifolia, a dioecious plant with stable dimorphism in floral traits, early experiments suggested that female-regulator genes act on the factors that determine the boundaries of the flower whorls. To identify these regulators, we sequenced the transcriptome of male flowers with fully developed gynoecia induced by rapid demethylation in the parental generation. As the hermaphrodite flower trait is holandric (transmitted only from male to male, inherited on the Y chromosome), we screened for genes that are differentially expressed between male, female, and hermaphrodite flowers. Dozens of candidate genes that are upregulated in hermaphrodite flowers compared to male and female flowers were detected and found to have putative roles in floral organization, affecting the expression of floral MADS-box and other genes. Amongst these genes, eight candidates were found to promote gynoecium formation in female and hermaphrodite flowers, affecting organ size, whorl boundary, and the expression of mainly B class flower genes. To complement our transcriptome analysis, we closely examined the floral organs in their native state using a field emission environmental scanning electron microscope. Our results reveal the principal regulatory pathways involved in sex-specific flower development in the classical model of dioecy, S. latifolia.

2016 ◽  
Vol 7 ◽  
Author(s):  
Adil Hussain ◽  
Bong-Gyu Mun ◽  
Qari M. Imran ◽  
Sang-Uk Lee ◽  
Teferi A. Adamu ◽  
...  

2019 ◽  
Author(s):  
Sonia Balyan ◽  
Sombir Rao ◽  
Sarita Jha ◽  
Chandni Bansal ◽  
Jaishri Rubina Das ◽  
...  

AbstractThe footprint of tomato cultivation, a cool region crop that exhibits heat stress (HS) sensitivity, is increasing in the tropics/sub-tropics. Knowledge of novel regulatory hot-spots from varieties growing in the Indian sub-continent climatic zones could be vital for developing HS-resilient crops. Comparative transcriptome-wide signatures of a tolerant (CLN1621L) and sensitive (CA4) cultivar-pair short-listed from a pool of varieties exhibiting variable thermo-sensitivity using physiological, survival and yield-related traits revealed redundant to cultivar-specific HS-regulation with more up-regulated genes for CLN1621L than CA4. The anatgonisiticly-expressing genes include enzymes; have roles in plant defense and response to different abiotic stresses. Functional characterization of three antagonistic genes by overexpression and TRV-VIGS silencing established Solyc09g014280 (Acylsugar acyltransferase) and Solyc07g056570 (Notabilis), that are up-regulated in tolerant cultivar, as positive regulators of HS-tolerance and Solyc03g020030 (Pin-II proteinase inhibitor), that is down-regulated in CLN1621L, as negative regulator of thermotolerance. Transcriptional assessment of promoters of these genes by SNPs in stress-responsive cis-elements and promoter swapping experiments in opposite cultivar background showed inherent cultivar-specific orchestration of transcription factors in regulating transcription. Moreover, overexpression of three ethylene response transcription factors (ERF.C1/F4/F5) also improved HS-tolerance in tomato. This study identifies several novel HS-tolerance genes and provides proof of their utility in tomato-thermotolerance.HighlightNovel heat stress regulatory pathways uncovered by comparative transcriptome profiling between contrasting tomato cultivars from Indian sub-continent for improving thermotolerance. (20/30)


1998 ◽  
Vol 46 (1) ◽  
pp. 17-25 ◽  
Author(s):  
Lorne M. Wolfe

This study examined issues related to the ecology of andromonoecy in Gagea chlorantha (Liliaceae), a perennial geophyte that grows in desert and Mediterranean-type habitats in Israel. Andromonoecy is a plant sexual system where individuals produce both male and hermaphrodite flowers and is thought to have evolved to optimize resource allocation to male and female function. Individuals of this species produced 1–6 flowers, and flower production was significantly correlated with the size of the storage organ (bulb). Three sexual phenotypes were found to exist: those that made only male flowers, plants that made only hermaphrodite flowers, and those that produced both flower types. Two lines of evidence suggest that hermaphroditic reproduction is more costly than male reproduction: (1) hermaphroditic flowers were heavier than male flowers in terms of dry biomass; (2) bulb size was greater on single-flower plants that were hermaphrodite compared to male. In addition, bulb size was greater on multiple-flowered plants that made a hermaphrodite flower as the last flower, compared to those that made a male flower. The floral sex ratio varied extensively along a latitudinal rainfall gradient within Israel. The five Mediterranean populations were male-biased. In contrast, the production of males in the three Negev desert populations was extremely rare, and approximately 94% of the flowers were hermaphrodite. The difference in sex ratio between the two habitat types is explained in terms of environmental unpredictability.


1996 ◽  
Vol 10 (4) ◽  
pp. 679-689 ◽  
Author(s):  
Sachihiro Matsunaga ◽  
Shigeyuki Kawano ◽  
Hiroyoshi Takano ◽  
Hidenobu Uchida ◽  
Atsushi Sakai ◽  
...  

2019 ◽  
Vol 7 (1) ◽  
pp. 21
Author(s):  
Noflindawati Noflindawati ◽  
Aswaldi Anwar ◽  
Yusniwati Yusniwati ◽  
Agus Sutanto

The papaya plant has three types of flowering, male flowers, female flowers, and perfect flower (hermaphrodite). The difference in interest affects the shape of the resulting fruit. This study aimed to characterize morphology and cytology of papaya flowers. The study was conducted in Tropical Fruit  Research  Institute at Solok and Laboratory of SPT at the Biology Department of the Faculty of Mathematics and Natural Sciences, Andalas University, Padang, West Sumatra. The research material uses papaya flowers Merah Delima variety  from KP. Aripan Balitbu Troipka. The results showed the male flowers of male plants were smaller than the male flowers of the perfect plant. The difference of hermaphrodite flower of pentandria with hermaphrodite elongata flower, among others, the number of stamens, the length of the stem and the size of the ovary. Hermaphrodite pentandria has a number of stamens 5 while elongata has stamens 10


2020 ◽  
Vol 11 ◽  
Author(s):  
Xiao-Long Yuan ◽  
Xiu-Qi Li ◽  
Kuo Xu ◽  
Xiao-Dong Hou ◽  
Zhong-Feng Zhang ◽  
...  

2018 ◽  
Vol 1 ◽  
pp. 00002
Author(s):  
Budi Setiadi Daryono ◽  
Eko Prasetya ◽  
Sumarlina Sumarlina ◽  
Dian Sartika ◽  
Aprilia Sufi Subiastuti

<p class="Abstract">Melon is a potential horticultural crop which the production is increased significantly each year in Indonesia. However, a melon plant that has been widely developed in Indonesia faced a problem due to the high tropical temperature that affected the fall of flower causing failure in fruit production. In addition, the variation of sex expression in melon flower is important for genetic analysis and breeding programs. Ethepon is one of plant chemical growth regulator that is known to change the sex expression of the plant by increasing the number of female flower in monoecious plant especially Cucurbitaceae. This research aimed to analyze the effect of ethepon treatment on the sex determination of melon flower. This study was conducted by 3 stages treatment of ethepon during March – July 2014, namely when 2, 5, and 7 weeks after planting. Split-plot design has been used with the main plots were arranged in a completely randomized design by cultivating different melon cultivars i.e: Melodi Gama 1, Melodi Gama 3, Bartek, and PI 371795. The data were analyzed by F-test and Duncan Multiple Range Test (DMRT) with significance level at 5 % using software SAS 9.3. The result showed that ethepon treatment affected the formation of melon flower by increasing the number of female or hermaphrodite flower and decreasing the number of male flowers, especially in the concentration of 75 ppm and 100 ppm but with different responses by different cultivar.&nbsp;<o:p></o:p></p>


2020 ◽  
Vol 19 (3) ◽  
pp. 117
Author(s):  
RR. SRI HARTATI ◽  
SUDARSONO SUDARSONO

<p>ABSTRAK<br />Kontribusi sifat hermaprodit terhadap daya hasil tanaman jarak<br />pagar belum banyak diketahui. Tujuan penelitian adalah mengetahui peran<br />bunga hermaprodit terhadap daya hasil dan mekanisme pewarisannya.<br />Penelitian dilakukan terhadap 60 genotipe jarak pagar di Kebun Percobaan<br />Balittri Sukabumi. Penelitian dilaksanakan mulai bulan Mei 2007 sampai<br />dengan Juli 2010. Jarak tanam 2 m x 2 m, menggunakan 2,5 kg pupuk<br />kandang + 20 g Urea + 20 g SP 36 + 10 g KCl per tanaman. Penelitian<br />terdiri dari (1) evaluasi tipe bunga jarak pagar dan (2) pewarisan sifat<br />hermaprodit dan kontribusinya terhadap daya hasil. Hasil evaluasi<br />menunjukkan bahwa delapan dari 60 genotipe jarak pagar yang dievaluasi<br />merupakan tanaman tri-monoecious yang menghasilkan bunga jantan,<br />bunga betina, dan bunga hermaprodit, 52 lainnya merupakan tanaman<br />monoecious yang hanya menghasilkan bunga jantan dan bunga betina.<br />Karakter yang dimiliki oleh delapan genotipe tri-monoecious yang<br />dievaluasi adalah lebih lambat berbunga (mulai berbunga pada umur 120-<br />274 hari) dan berdaya hasil rendah sampai sedang (jumlah buah 23-228<br />per tanaman pada tahun pertama). Kemunculan bunga hermaprodit tidak<br />terjadi sepanjang tahun, tetapi lebih dominan pada tanaman berumur enam<br />bulan. Persentase bunga hermaprodit berkisar 6,25-53% dari total bunga<br />yang dihasilkan. Persentase fruitset pada tandan bunga hermaprodit lebih<br />tinggi dibanding tandan bunga non-hermaprodit, dengan tingkat<br />keberhasilan rata-rata 80% (kisaran 56-100%). Pada tandan bunga yang<br />tidak menghasilkan bunga hermaprodit, buah jadi rata-rata sebesar 50%<br />(kisaran 11-100%). Daya hasil tanaman jarak pagar ditentukan oleh<br />genetik tetua. Bunga hermaprodit diwariskan oleh tetua betina maupun<br />tetua jantan. Gen pengendali sifat hermaprodit diduga adalah gen<br />sederhana yang bersifat dominan.<br />Kata kunci: Jatropha  curcas,  monoecious,  tri-monoecious,  bunga<br />hermaprodit, fruit set</p><p>ABSTRACT<br />Hermaphrodite character has been reported in physic nut, its role<br />and contribution to production process especially to the yield has not been<br />investigated. The objectives of this research were to evaluate<br />hermaphrodite flowers contribution on yield and their mechanism<br />inheritance. The evaluation was conducted at the Experimental Station of<br />Balittri Sukabumi from May 2007 to July 2010. The spacing was 2 m x 2<br />m with 2,5 kg manure + 20 g Urea + 20 g SP 36 + 10 g KCl/plant. The<br />experiment consisted of (1) evaluation of flower type of physic nut and<br />(2) hermaphrodite inheritance and their contribution on yield. Results of<br />the experiment indicated eight from 60 physic nut genotypes were tri-<br />monoecious which were capable on producing male, female, and<br />hermaphrodite flowers while as the rest (52 genotypes) were monoecious<br />which produced only male and female flowers. The tri-monoecious were<br />generally late flowering (120-274 days after planting) and low to medium<br />yield (producing 23-228 fruits per plant in the first year). Hermaphrodite<br />flowers generally occurred six months after planting at the amount ranged<br />from 6,25-53% of total flowers. Fruit set of inflorescences having<br />hermaphrodite flowers was higher, average of 80% (ranged from 56-<br />100%) than those with female and male flowers, average of 50% (ranged<br />from 11-100%). Yield of physic nut was affected by the genetic potential<br />of their parents rather than hermaphrodite character. Hermaphrodite flower<br />character was inherited by both female and male parents and might be<br />controlled by simple-dominant gene.<br />Key words: Jatropha curcas, monoecious, tri-monoecious, hermaphrodite<br />flower, fruit set</p>


2018 ◽  
Author(s):  
Mo-Xian Chen ◽  
Fu-Yuan Zhu ◽  
Feng-Zhu Wang ◽  
Neng-Hui Ye ◽  
Bei Gao ◽  
...  

AbstractPost-transcriptional mechanisms, including alternative splicing (AS) and alternative translation initiation (ATI), have been used to explain the protein diversity involved in plant developmental processes and stress responses. Rice germination under hypoxia conditions is a classical model system for the study of low oxygen stress. It is known that there is transcriptional regulation during rice hypoxic germination, but the potential roles of AS and ATI in this process are not well understood. In this study, a proteogenomic approach was used to integrate the data from RNA sequencing, qualitative and quantitative proteomics to discover new players or pathways in the response to hypoxia stress. The improved analytical pipeline of proteogenomics led to the identification of 10,253 intron-containing genes, 1,729 of which were not present in the current annotation. Approximately 1,741 differentially expressed AS (DAS) events from 811 genes were identified in hypoxia-treated seeds in comparison to controls. Over 95% of these were not present in the list of differentially expressed genes (DEG). In particular, regulatory pathways such as spliceosome, ribosome, ER protein processing and export, proteasome, phagosome, oxidative phosphorylation and mRNA surveillance showed substantial AS changes under hypoxia, suggesting that AS responses are largely independent of traditional transcriptional regulation. Massive AS changes were identified, including the preference usage of certain non-conventional splice sites and enrichment of splicing factors in the DAS datasets. In addition, using self-constructed protein libraries by 6-frame translation, thousands of novel proteins/peptides contributed by ATI were identified. In summary, these results provide deeper insights towards understanding the underlying mechanisms of AS and ATI during rice hypoxic germination.


2017 ◽  
Author(s):  
David Angeles-Albores ◽  
Carmie Puckett Robinson ◽  
Brian A. Williams ◽  
Barbara J. Wold ◽  
Paul W. Sternberg

AbstractRNA-seq is commonly used to identify genetic modules that respond to perturbations. In single cells, transcriptomes have been used as phenotypes, but this concept has not been applied to whole-organism RNA-seq. Linear models can quantify expression effects of individual mutants and identify epistatic effects in double mutants. To make interpretation of these high-dimensional measurements intuitive, we developed a single coefficient to quantify transcriptome-wide epistasis that accurately reflects the underlying interactions. To demonstrate our approach, we sequenced four single and two double mutants of Caenorhabditis elegans. From these mutants, we reconstructed the known hypoxia pathway. In addition, we uncovered a class of 56 genes that have opposing changes in expression in egl-9(lf) compared to vhl-1(lf) but the egl-9(lf); vhl-1(lf) mutant has the same phenotype as egl-9(lf). This class violates the classical model of HIF-1 regulation, but can be explained by postulating a role of hydroxylated HIF-1 in transcriptional control.Significance StatementTranscriptome profiling is a way to quickly and quantitatively measure gene expression level. Because of their quantitative nature, there is widespread interest in using transcriptomic profiles as a phenotype for genetic analysis. However, a source of major concern is that whole-animal transcriptomic profiles mix the expression signatures of multiple cellular states, making it hard to accurately reconstruct genetic interactions. Additionally, it has been difficult to quantify epistasis, the signature of genetic interaction between two genes, in these molecular phenotypes. Here, we show that it is possible to accurately reconstruct genetic interactions between genes using whole-animal RNA sequencing, and we demonstrate a powerful new way to measure and understand epistasis arising from these measurements. This suggests that whole-organism RNA-seq can be a powerful tool with which to understand genetic interactions in entire organisms and not only in isolated cells. With the advent of genome engineering tools, generating mutants has become easier and faster for many organisms. As mutants become easier to create, phenotyping them has become a major bottleneck in understanding the biological functions of the genes in question. Our work presents a possible solution to this problem, because transcriptome profiling is fast and sensitive to genetic perturbations regardless of the context they operate in.


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