We have sequenced and assembled a draft genome of G. raimondii, whose progenitor is the putative contributor of the D subgenome to the economically important fiber-producing cotton species Gossypium ...hirsutum and Gossypium barbadense. Over 73% of the assembled sequences were anchored on 13 G. raimondii chromosomes. The genome contains 40,976 protein-coding genes, with 92.2% of these further confirmed by transcriptome data. Evidence of the hexaploidization event shared by the eudicots as well as of a cotton-specific whole-genome duplication approximately 13-20 million years ago was observed. We identified 2,355 syntenic blocks in the G. raimondii genome, and we found that approximately 40% of the paralogous genes were present in more than 1 block, which suggests that this genome has undergone substantial chromosome rearrangement during its evolution. Cotton, and probably Theobroma cacao, are the only sequenced plant species that possess an authentic CDN1 gene family for gossypol biosynthesis, as revealed by phylogenetic analysis.
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DOBA, IJS, IZUM, KILJ, NUK, PILJ, PNG, SAZU, UILJ, UKNU, UL, UM, UPUK
RB-GRP (RNA-binding Glycine-rich protein gene) family belongs to the fourth subfamily of the GRP (Glycine-rich protein gene) superfamily, which plays a great role in plant growth and development, as ...well as in abiotic stresses response, while it has not been identified in cotton. Here, we identified 37 and 32 RB-GRPs from two cotton species (Gossypium arboreum and Gossypium raimondii, respectively), which were divided into four distinct subfamilies based on the presence of additional motifs and the arrangement of the glycine repeats. The distribution of RB-GRPs was nonrandom and uneven among the chromosomes both in two cotton species. The expansion of RB-GRP gene family between two cultivars was mainly attributed to segmental and tandem duplication events indicated by synteny analysis, and the tandem duplicated genes were mapped into homologous collinear blocks, indicated that they shared a common ancestral gene in both species. Furthermore, most RB-GRPs in two cotton species undergone stronger negative selective pressure by evolutionary analysis of RB-GRP orthologous genes. Meanwhile, RB-GRPs participated in different abiotic stresses (Abscisic acid, salt and Polyethylene glycol) responses and tissues at different developmental stages between two cotton species were showed by gene expression analysis. This research would provide insight into the evolution and function of the RB-GRPs in Gossypium species.
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DOBA, IZUM, KILJ, NUK, PILJ, PNG, SAZU, SIK, UILJ, UKNU, UL, UM, UPUK
Sucrose synthase (Sus) is a key enzyme in plant sucrose metabolism. In cotton, Sus (EC 2.4.1.13) is the main enzyme that degrades sucrose imported into cotton fibers from the phloem of the seed coat. ...This study demonstrated that the genomes of Gossypium arboreum L., G. raimondii Ulbr., and G. hirsutum L., contained 8, 8, and 15 Sus genes, respectively. Their structural organizations, phylogenetic relationships, and expression profiles were characterized. Comparisons of genomic and coding sequences identified multiple introns, the number and positions of which were highly conserved between diploid and allotetraploid cotton species. Most of the phylogenetic clades contained sequences from all three species, suggesting that the Sus genes of tetraploid G. hirsutum derived from those of its diploid ancestors. One Sus group (Sus I) underwent expansion during cotton evolution. Expression analyses indicated that most Sus genes were differentially expressed in various tissues and had development‐dependent expression profiles in cotton fiber cells. Members of the same orthologous group had very similar expression patterns in all three species. These results provide new insights into the evolution of the cotton Sus gene family, and insight into its members' physiological functions during fiber growth and development.
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BFBNIB, FZAB, GIS, IJS, IZUM, KILJ, NLZOH, NUK, OILJ, PILJ, PNG, SAZU, SBCE, SBMB, UL, UM, UPUK
•Thirty two polyphenolic compounds have been identified from Amygdalus pedunculata Pall seed coat.•The characterization of the polyphenols indicated that it possessed high antioxidant activity.•The ...results of bacteriostatic test showed that polyphenols had good antibacterial activity.•HepG2 cell viability assays illustrated that polyphenols significantly inhibited cell proliferation while induced cell apoptosis.
This study aims at identifying the composition of polyphenols present in Amygdalus pedunculata Pall seed coat (APSC), and characterizing their antioxidant, antibacterial, and anticancer activities. The polyphenols from APSC were composed of 32 compounds. The compounds with important biological activities included apigenin 7-O-glucoside (the main component; 34.53 mg/100 g), quercitrin (23.43 mg/100 g), kaempferol (10.28 mg/100 g), naringenin (6.27 mg/100 g), cyanidin 3-rutinoside (5.76 mg/100 g), cyanidin 3-O-galactoside (5.19 mg/100 g), and quercetin (2.50 mg/100 g), as well as a variety of phenolic acids (gentisic acid, 23.13 mg/100 g; salicylic acid, 18.79 mg/100 g; gallic acid, 2.55 mg/100 g; etc.). Characterization of the identified polyphenols indicated that APSC possessed high antioxidant activity, due to its ability to reduce Fe3+ and scavenge ABTS, DPPH, OH, O2−, and H2O2 free radicals. The ability of APSC to reduce Fe3+ and scavenge ABTS radical, and H2O2 was stronger than that of control group ascorbic acid (Vc). The data from bacteriostatic test showed that polyphenols from APSC had good antibacterial activity against Escherichia coli, Staphylococcus aureus, Bacillus cereus, and Bacillus subtilis, but showed no activity against Aspergillus niger. Cell viability assays using HepG2 cell illustrated that polyphenols from APSC significantly inhibited cell proliferation and induced cell apoptosis. The findings demonstrate that polyphenols from APSC may be utilized as is or further developed into natural antioxidant, antibacterial, and anticancer agents. This work also provides a basis for the development and utilization of Amygdalus pedunculata Pall.
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GEOZS, IJS, IMTLJ, KILJ, KISLJ, NLZOH, NUK, OILJ, PNG, SAZU, SBCE, SBJE, UL, UM, UPCLJ, UPUK, ZRSKP
The main objective of the current study was to investigate the components and radical scavenging activity of essential oil from Amygdalus pedunculata Pall leaves (APEO) extracted by an ...ultrasound-assisted method. Thirty-eight chemical components were identified in APEO using gas chromatography-mass spectrometry (GC-MS). APEO primarily consisted of alcohols (36.82%), esters (28.81%), ketones (1.47%), alkanes (18.61%) and phenols (8.93%). The most abundant compound was n-hexanol (33.49%). The antioxidant activity of APEO was characterized for 2,2-diphenyl-1-picrylhydrazyl (DPPH) radical, hydroxyl radical (OH·), hydrogen peroxide (H2O2), and superoxide anion radical (O2·-) scavenging and Fe3+ reduction, and the IC50 values were 2.32, 2.65, 2.42, 5.24 and 4.19 mg/mL, respectively. The IC50 values for H2O2 scavenging and Fe3+ reduction of APEO were less than those of ascorbic acid (Vc; 3.15 and 5.13 mg/mL). The results showed that APEO has a high radical scavenging activity.
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•Ultrasonic assisted extraction essential oil from Amygdalus pedunculata Pall leaves was first carried out.•38 compounds were identified by GC-MS, which contained important bioactive substances.•The essential oil was found rich in eugenol and coumarin.•The essential oil exhibited high free radical scavenging activity and total reduction ability.
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GEOZS, IJS, IMTLJ, KILJ, KISLJ, NLZOH, NUK, OILJ, PNG, SAZU, SBCE, SBJE, UL, UM, UPCLJ, UPUK, ZRSKP
The polyphenols profiles of the methanol extracts of bitter apricot Armeniaca Sibirica (L.) kernel skins (AKS) were analysed by liquid chromatography-electrospray ionization mass spectrometry. The ...antioxidan, anticancer effect on HepG2 cell and antibacterial properties of the AKS polyphenol extracts were further characterized in vitro. Polyphenol compounds (35), including nine phenolic acids, thirteen anthocyanins and thirteen flavonoids, were identified in AKS for the first time. The content of apigenin 7-O-glucoside, (cyanidin 3-(4″-acetylrutinoside), 3- (6″-acetylglucoside)-5-glucoside and salicylic acid was relatively high than the others. The AKS polyphenols strongly reduced Fe3+ and exhibited good scavenging activity towards 2,2′-azino-bis(3-ethylbenzothiazoline-6-sulphonic acid) free radicals, 1,1-diphenyl-1-picrylhydrazyl free radicals, hydroxyl radicals, superoxide anions and hydrogen peroxide. The AKS polyphenols could regulate oxidant stress in HepG2 cells by downregulating reduced glutathione, upregulating oxidative glutathione, malondialdehyde and advanced oxidation protein products, and reduced cell viability to induce apoptosis of HepG2 cells in vitro. The AKS polyphenols showed strong antibacterial activity against Escherichia coli, Staphylococcus aureus, Bacillus subtilis, Acetobacter aceti and Bacillus cereus. Therefore, the antioxidant, inhibitory effect on HepG2 cells and antimicrobial activity of the AKS polyphenols were distinct and worthy of further consideration for medical industry applications.
•Apigenin 7-O-glucoside was most abundant compound in the polyphenols from apricot (Armeniaca Sibirica L. Lam) kernel skins.•• The polyphenols exhibited strong antioxidant activity towards free radicals and hydrogen peroxide (H2O2).•Polyphenols showed antibacterial activity against Escherichia coli, Staphylococcus aureus, Bacillus sp.•The polyphenols had a significant inhibitory effect on the proliferation of HepG2 cells, while caused its apoptosis.
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GEOZS, IJS, IMTLJ, KILJ, KISLJ, NLZOH, NUK, OILJ, PNG, SAZU, SBCE, SBJE, UL, UM, UPCLJ, UPUK, ZRSKP
A high‐density linkage map was constructed for an F2 population derived from an interspecific cross of cultivated allotetraploid species between Gossypium hirsutum L. and G. barbadense L. A total of ...186 F2 individuals from the interspecific cross of “CRI 36 × Hai 7124” were genotyped at 1 252 polymorphic loci including a novel marker system, target region amplification polymorphism (TRAP). The map consists of 1 097 markers, including 697 simple sequence repeats (SSRs), 171 TRAPs, 129 sequence‐related amplified polymorphisms, 98 amplified fragment length polymorphisms, and two morphological markers, and spanned 4 536.7 cM with an average genetic distance of 4.1 cM per marker. Using 45 duplicated SSR loci among chromosomes, 11 of the 13 pairs of homologous chromosomes were identified in tetraploid cotton. This map will provide an essential resource for high resolution mapping of quantitative trait loci and molecular breeding in cotton.
(Handling editor: Yong‐Biao Xue)
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BFBNIB, FZAB, GIS, IJS, IZUM, KILJ, NLZOH, NUK, OILJ, PILJ, PNG, SAZU, SBCE, SBMB, UL, UM, UPUK
Traditional gene mapping using forward genetic approaches is conducted primarily through construction of a genetic linkage map, the process of which is tedious and time-consuming, and often results ...in low accuracy of mapping and large mapping intervals. With the rapid development of high-throughput sequencing technology and decreasing cost of sequencing, a variety of simple and quick methods of gene mapping through sequencing have been developed, including direct sequencing of the mutant genome, sequencing of selective mutant DNA pooling, genetic map construction through sequencing of individuals in population, as well as sequencing of transcriptome and partial genome. These methods can be used to identify mutations at the nucleotide level and has been applied in complex genetic background. Recent reports have shown that sequencing mapping could be even done without the reference of genome sequence, hybridization, and genetic linkage information, which made it possible to perform forward genetic study in many
The complex allotetraploid nature of the cotton genome (AADD; 2n = 52) makes genetic, genomic and functional analyses extremely challenging. Here we sequenced and assembled the Gossypium arboreum ...(AA; 2n = 26) genome, a putative contributor of the A subgenome. A total of 193.6 Gb of clean sequence covering the genome by 112.6-fold was obtained by paired-end sequencing. We further anchored and oriented 90.4% of the assembly on 13 pseudochromosomes and found that 68.5% of the genome is occupied by repetitive DNA sequences. We predicted 41,330 protein-coding genes in G. arboreum. Two whole-genome duplications were shared by G. arboreum and Gossypium raimondii before speciation. Insertions of long terminal repeats in the past 5 million years are responsible for the twofold difference in the sizes of these genomes. Comparative transcriptome studies showed the key role of the nucleotide binding site (NBS)-encoding gene family in resistance to Verticillium dahliae and the involvement of ethylene in the development of cotton fiber cells.
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DOBA, IJS, IZUM, KILJ, NUK, PILJ, PNG, SAZU, UILJ, UKNU, UL, UM, UPUK
Gossypium hirsutum has proven difficult to sequence owing to its complex allotetraploid (AtDt) genome. Here we produce a draft genome using 181-fold paired-end sequences assisted by fivefold ...BAC-to-BAC sequences and a high-resolution genetic map. In our assembly 88.5% of the 2,173-Mb scaffolds, which cover 89.6%∼96.7% of the AtDt genome, are anchored and oriented to 26 pseudochromosomes. Comparison of this G. hirsutum AtDt genome with the already sequenced diploid Gossypium arboreum (AA) and Gossypium raimondii (DD) genomes revealed conserved gene order. Repeated sequences account for 67.2% of the AtDt genome, and transposable elements (TEs) originating from Dt seem more active than from At. Reduction in the AtDt genome size occurred after allopolyploidization. The A or At genome may have undergone positive selection for fiber traits. Concerted evolution of different regulatory mechanisms for Cellulose synthase (CesA) and 1-Aminocyclopropane-1-carboxylic acid oxidase1 and 3 (ACO1,3) may be important for enhanced fiber production in G. hirsutum.
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DOBA, IJS, IZUM, KILJ, NUK, PILJ, PNG, SAZU, SBMB, SIK, UILJ, UKNU, UL, UM, UPUK
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