scholarly journals The genome of low-chill Chinese plum ‘Sanyueli’ (Prunus salicina Lindl.) provides insights into the regulation of the chilling requirement of flower buds

2020 ◽  
Author(s):  
Zhi-Zhen Fang ◽  
Kui Lin-Wang ◽  
He Dai ◽  
Dan-Rong Zhou ◽  
Cui-Cui Jiang ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Molecular Mechanisms ◽  
Molecular Breeding ◽  
Agronomic Traits ◽  
Bud Break ◽  
Chilling Requirement ◽  
Flower Buds ◽  
Flower Bud ◽  
Protein Coding ◽  
Prunus Salicina

AbstractChinese plum (Prunus salicina Lindl.) is a stone fruit that belongs to the Prunus genus and plays an important role in the global production of plum. In this study, we report the genome sequence of the Chinese plum ‘Sanyueli’, which is known to have a low-chill requirement for flower bud break. The assembled genome size was 308.06 Mb, with a contig N50 of 815.7 kb. A total of 30,159 protein-coding genes were predicted from the genome and 56.4% (173.39 Mb) of the genome was annotated as repetitive sequence. Bud dormancy is influenced by chilling requirement in plum and partly controlled by DORMANCY ASSOCIATED MADS-box (DAM) genes. Six tandemly arrayed PsDAM genes were identified in the assembled genome. Sequence analysis of PsDAM6 in ‘Sanyueli’revealed the presence of large insertions in the intron and exon regions. Transcriptome analysis indicated that the expression of PsDAM6 in the dormant flower buds of ‘Sanyueli’ was significantly lower than that in the dormant flower buds of the high chill requiring ‘Furongli’ plum. In addition, the expression of PsDAM6 was repressed by chilling treatment. The genome sequence of ‘Sanyueli’ plum provides a valuable resource for elucidating the molecular mechanisms responsible for the regulation of chilling requirements, and is also useful for the identification of the genes involved in the control of other important agronomic traits and molecular breeding in plum.

scholarly journals Changes in Polyamine Content during Dormancy in Flower Buds of `Anna' Apple

1994 ◽  
Vol 119 (1) ◽  
pp. 70-73 ◽  
Author(s):  
Shiow Y. Wang ◽  
Miklos Faust
Keyword(s):  
Bud Break ◽  
Chilling Requirement ◽  
Flower Buds ◽  
Bud Development ◽  
Polyamine Content ◽  
Bud Growth

Polyamine, putrescine, spermidine, and spermine contents were determined during endodormancy in the buds of low-chilling-requiring `Anna' apples (Malus domestics Borkh.). Putrescine, spermidine, and spermine contents increased greatly in buds when their chilling requirement was satisfied. Polyamine biosynthetic inhibitors α -difluoromethylarginine (DFMA) or α -difluoromethylornithine (DFMO) reduced bud break and bud growth in concert with decreased polyamine titers. DFMO or DFMA did not inhibit bud break when it was applied to buds after they received the full chilling requirement. DFMO was more inhibitory than DFMA. The polyamine requirement was much higher for bud growth and bud development than during differentiation and bud break.

scholarly journals Analysis of Glucosinolate Content and Metabolism Related Genes in Different Parts of Chinese Flowering Cabbage

2022 ◽  
Vol 12 ◽  
Author(s):  
Xianjun Feng ◽  
Jiajun Ma ◽  
Zhiqian Liu ◽  
Xuan Li ◽  
Yinghua Wu ◽  
...  
Keyword(s):  
Molecular Mechanisms ◽  
Glucosinolate Content ◽  
Vegetable Crops ◽  
Flower Buds ◽  
Flower Bud ◽  
Expression Of Genes ◽  
Genes Encoding ◽  
Cruciferous Plants ◽  
Risk Of Cancer ◽  
Different Parts

Glucosinolates (GSLs) are important secondary metabolites that play important defensive roles in cruciferous plants. Chinese flowering cabbage, one of the most common vegetable crops, is rich in GSLs and thus has the potential to reduce the risk of cancer in humans. Many genes that are involved in GSL biosynthesis and metabolism have been identified in the model plant Arabidopsis thaliana; however, few studies investigated the genes related to GSL biosynthesis and metabolism in Chinese flowering cabbage. In the present study, the GSL composition and content in three different organs of Chinese flowering cabbage (leaf, stalk, and flower bud) were determined. Our results showed that the total GSL content in flower buds was significantly higher than in stalks and leaves, and aliphatic GSLs were the most abundant GSL type. To understand the molecular mechanisms underlying the variations of GSL content, we analyzed the expression of genes encoding enzymes involved in GSL biosynthesis and transport in different tissues of Chinese flowering cabbage using RNA sequencing; the expression levels of most genes were found to be consistent with the pattern of total GSL content. Correlation and consistency analysis of differentially expressed genes from different organs with the GSL content revealed that seven genes (Bra029966, Bra012640, Bra016787, Bra011761, Bra006830, Bra011759, and Bra029248) were positively correlated with GSL content. These findings provide a molecular basis for further elucidating GSL biosynthesis and transport in Chinese flowering cabbage.

scholarly journals Genome assembly and annotation of Macadamia tetraphylla

2020 ◽  
Author(s):  
Ying-Feng Niu ◽  
Guo-Hua Li ◽  
Shu-Bang Ni ◽  
Xi-Yong He ◽  
Cheng Zheng ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Agronomic Traits ◽  
Average Length ◽  
Biological Research ◽  
High Quality ◽  
Protein Coding ◽  
Macadamia Integrifolia ◽  
Oxford Nanopore ◽  
High Quality Genome ◽  
Oxford Nanopore Technologies

AbstractMacadamia is a kind of evergreen nut trees which belong to the Proteaceae family. The two commercial macadamia species, Macadamia integrifolia and M. tetraphylla, are highly prized for their edible kernels. Catherine et al. reported M. integrifolia genome using NGS sequencing technology. However, the lack of a high-quality assembly for M. tetraphylla hinders the progress in biological research and breeding program. In this study, we report a high-quality genome sequence of M. tetraphylla using the Oxford Nanopore Technologies (ONT) technology. We generated an assembly of 750.54 Mb with a contig N50 length of 1.18 Mb, which is close to the size estimated by flow cytometry and k-mer analysis. Repetitive sequence represent 58.57% of the genome sequence, which is strikingly higher compared with M. integrifolia. A total of 31,571 protein-coding genes were annotated with an average length of 6,055 bp, of which 92.59% were functionally annotated. The genome sequence of M. tetraphylla will provide novel insights into the breeding of novel strains and genetic improvement of agronomic traits.

scholarly journals Various Freezing Strategies of Flower-bud Hardiness in Prunus

1994 ◽  
Vol 119 (3) ◽  
pp. 584-588 ◽  
Author(s):  
Sorkel A. Kadir ◽  
Edward L. Proebsting
Keyword(s):  
Prunus Persica ◽  
Prunus Dulcis ◽  
Prunus Serotina ◽  
Flower Buds ◽  
Flower Bud ◽  
Intermediate Group ◽  
Prunus Salicina ◽  
Moderate Rate ◽  
Large Flower ◽  
Prunus Davidiana

Flower buds of 20 Prunus species showed quite different strategies to cope with low temperatures. Buds of most species deep supercooled. The two hardiest species, both from the subgenus Padus (P. padus L. and P. virginiana L.), did not supercool and survived -33C with no bud kill. Prunus serotina J.F. Ehrh., also in Padus, did supercool. Prunus nigra Ait., P. americana Marsh, P. fruticosa Pall., and P. besseyi L.H. Bailey had a low minimum hardiness level (MHL), small buds, and a low water content. Exotherms were no longer detectable from the buds of these species after 2 days at -7C and some buds survived -33C. Prunus triloba Lindl. and P. japonica Thunb. were similar to that group, but no buds survived -33C. Prunus davidiana (Carriere) Franch., P. avium L., and P. domestica L. had a relatively high MHL but hardened rapidly when the buds were frozen. Prunus persica (L.) Batsch., P. subhirtella Miq., P. dulcis (Mill) D. A. Webb, and P. emarginata (Dougl. ex Hook) Walp. deep supercooled, had large flower buds and a high MHL, and were killed in the Dec. 1990 freeze. Prunus salicina Lindl., P. hortulana L.H. Bailey, P. armeniaca L., and P. tomentosa Thunb. were in an intermediate group with a moderately low MHL and a moderate rate of hardiness increase while frozen. Prunus dulcis and P. davidiana had a low chilling requirement and bloomed early, whereas P. virginiana, P. fruticosa, P. nigra, and P. domestica had high chilling requirements and bloomed late.

scholarly journals Genome Sequence Resource for the Oomycete Taro Pathogen Phytophthora colocasiae

2018 ◽  
Vol 31 (9) ◽  
pp. 903-905 ◽  
Author(s):  
Ramesh R. Vetukuri ◽  
Sandeep K. Kushwaha ◽  
Diya Sen ◽  
Stephen C. Whisson ◽  
Kurt H. Lamour ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Molecular Mechanisms ◽  
Draft Genome ◽  
Phytophthora Species ◽  
Protein Coding ◽  
Phytophthora Colocasiae ◽  
The Tropics ◽  
Staple Crop ◽  
The Impact ◽  
Vietnamese Strain

Phytophthora colocasiae is a phytopathogenic oomycete that causes leaf blight and corm rot on taro (Colocasia esculenta), an important staple crop in the tropics. The impact of P. colocasiae is a serious concern for food security in Asian and Oceanic regions. Vietnamese strain 7290 of P. colocasiae was sequenced (Illumina) to assemble a draft genome of 56.6 Mb, comprised of 19,853 scaffolds and 19,984 predicted protein-coding genes. As in other Phytophthora species, P. colocasiae possesses numerous pathogenicity-related genes, such as the RxLR class of effectors. This draft genome sequence of P. colocasiae provides a resource to underpin the first steps in determining the molecular mechanisms of disease development in this pathosystem.

scholarly journals Draft Genome Sequence of Stenotrophomonas sp. Strain SbOxS2, an Antimony-Oxidizing Bacterium Isolated from Stibnite Mine Tailing Soil

2020 ◽  
Vol 9 (49) ◽  
Author(s):  
Natsuko Hamamura ◽  
Nobuyoshi Nakajima ◽  
Shigeki Yamamura
Keyword(s):  
Heavy Metal ◽  
Genome Sequence ◽  
Molecular Mechanisms ◽  
Draft Genome ◽  
Heavy Metal Resistance ◽  
Metal Resistance ◽  
Mine Tailing ◽  
Draft Genome Sequence ◽  
Protein Coding ◽  
Coding Sequences

ABSTRACT The antimony-oxidizing Stenotrophomonas sp. strain SbOxS2 was isolated from stibnite mine tailing soil. The draft genome sequence of strain SbOxS2 comprises 4.76 Mbp with 4,211 predicted protein-coding sequences. This genome will provide useful information for characterizing the molecular mechanisms associated with heavy metal resistance within the genus Stenotrophomonas.

Cyclamen Leaf Unfolding Rate in Response to Temperature

HortScience ◽  
1998 ◽  
Vol 33 (3) ◽  
pp. 447d-447
Author(s):  
Meriam Karlsson ◽  
Jeffrey Werner
Keyword(s):  
Day Length ◽  
Leaf Number ◽  
Cyclamen Persicum ◽  
Flower Buds ◽  
Flower Bud ◽  
Leaf Unfolding ◽  
Significant Difference ◽  
Number Of Leaves ◽  
Growth Chambers ◽  
Response To Temperature

Nine-week-old plants of Cyclamen persicum `Miracle Salmon' were transplanted into 10-cm pots and placed in growth chambers at 8, 12, 16, 20, or 24 °C. The irradiance was 10 mol/day per m2 during a 16-h day length. After 8 weeks, the temperature was changed to 16 °C for all plants. Expanded leaves (1 cm or larger) were counted at weekly intervals for each plant. The rate of leaf unfolding increased with temperature to 20 °C. The fastest rate at 20 °C was 0.34 ± 0.05 leaf/day. Flower buds were visible 55 ± 7 days from start of temperature treatments (118 days from seeding) for the plants grown at 12, 16, or 20 °C. Flower buds appeared 60 ± 6.9 days from initiation of treatments for plants grown at 24 °C and 93 ± 8.9 days for cyclamens grown at 8 °C. Although there was no significant difference in rate of flower bud appearance for cyclamens grown at 12, 16, or 20 °C, the number of leaves, flowers, and flower buds varied significantly among all temperature treatments. Leaf number at flowering increased from 38 ± 4.7 for plants at 12 °C to 77 ± 8.3 at 24 °C. Flowers and flower buds increased from 18 ± 2.9 to 52 ± 11.0 as temperature increased from 12 to 24 °C. Plants grown at 8 °C had on average 6 ± 2 visible flower buds, but no open flowers at termination of the study (128 days from start of treatments).

scholarly journals Draft Genome Sequence of Urease-Producing Pseudorhodobacter sp. Strain E13, Isolated from the Yellow Sea in Gunsan, South Korea

2019 ◽  
Vol 8 (23) ◽  
Author(s):  
Si Chul Kim ◽  
Hyo Jung Lee
Keyword(s):  
South Korea ◽  
Genome Sequence ◽  
Yellow Sea ◽  
Draft Genome ◽  
The Yellow Sea ◽  
Draft Genome Sequence ◽  
Protein Coding ◽  
Coding Sequences ◽  
Gram Negative ◽  
Content Type

Here, we report the draft genome sequence of Pseudorhodobacter sp. strain E13, a Gram-negative, aerobic, nonflagellated, and rod-shaped bacterium which was isolated from the Yellow Sea in South Korea. The assembled genome sequence is 3,878,578 bp long with 3,646 protein-coding sequences in 159 contigs.

scholarly journals Genetic mapping and transcriptomic characterization of a new fuzzless-tufted cottonseed mutant

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Qian-Hao Zhu ◽  
Warwick Stiller ◽  
Philippe Moncuquet ◽  
Stuart Gordon ◽  
Yuman Yuan ◽  
...  
Keyword(s):  
Molecular Mechanisms ◽  
Agronomic Traits ◽  
Gene Families ◽  
Mutant Phenotype ◽  
Wild Type ◽  
Calcium Dependent ◽  
Dependent Protein ◽  
Flanking Region ◽  
Comparative Transcriptomic Analysis

Abstract Fiber mutants are unique and valuable resources for understanding the genetic and molecular mechanisms controlling initiation and development of cotton fibers that are extremely elongated single epidermal cells protruding from the seed coat of cottonseeds. In this study, we reported a new fuzzless-tufted cotton mutant (Gossypium hirsutum) and showed that fuzzless-tufted near-isogenic lines (NILs) had similar agronomic traits and a higher ginning efficiency compared to their recurrent parents with normal fuzzy seeds. Genetic analysis revealed that the mutant phenotype is determined by a single incomplete dominant locus, designated N5. The mutation was fine mapped to an approximately 250-kb interval containing 33 annotated genes using a combination of bulked segregant sequencing, SNP chip genotyping, and fine mapping. Comparative transcriptomic analysis using 0–6 days post-anthesis (dpa) ovules from NILs segregating for the phenotypes of fuzzless-tufted (mutant) and normal fuzzy cottonseeds (wild-type) uncovered candidate genes responsible for the mutant phenotype. It also revealed that the flanking region of the N5 locus is enriched with differentially expressed genes (DEGs) between the mutant and wild-type. Several of those DEGs are members of the gene families with demonstrated roles in cell initiation and elongation, such as calcium-dependent protein kinase and expansin. The transcriptome landscape of the mutant was significantly reprogrammed in the 6 dpa ovules and, to a less extent, in the 0 dpa ovules, but not in the 2 and 4 dpa ovules. At both 0 and 6 dpa, the reprogrammed mutant transcriptome was mainly associated with cell wall modifications and transmembrane transportation, while transcription factor activity was significantly altered in the 6 dpa mutant ovules. These results imply a similar molecular basis for initiation of lint and fuzz fibers despite certain differences.

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