Efficient CRISPR/Cas9-based genome editing in carrot cells

Plant Cell Reports, Journal Year: 2018, Volume and Issue: 37(4), P. 575 - 586

Published: Jan. 13, 2018

The first report presenting successful and efficient carrot genome editing using CRISPR/Cas9 system. Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)/CRISPR-associated (Cas9) is a powerful tool that has been widely adopted in model organisms recently, but not used carrot-a species for vitro culture studies an important health-promoting crop grown worldwide. In this study, the time, we application of system targeted mutagenesis genome. Multiplexing vectors expressing two single-guide RNA (gRNAs) targeting flavanone-3-hydroxylase (F3H) gene were tested blockage anthocyanin biosynthesis purple-colored callus Agrobacterium-mediated genetic transformation. This approach allowed fast visual comparison three codon-optimized Cas9 genes revealed most one generating F3H mutants was Arabidopsis AteCas9 with up to 90% efficiency. Knockout resulted discoloration calli, validating functional role as well providing marker screening successfully edited events. Most resulting mutations small Indels, long chromosome fragment deletions 116-119 nt also generated simultaneous cleavage mediated by gRNAs. results demonstrate site-directed usefulness validate systems. Given sequenced our timely study sheds light on promising tools boosting basic translational research vegetable crop.

Language: Английский

---

Advances in the research of celery, an important Apiaceae vegetable crop

Critical Reviews in Biotechnology, Journal Year: 2017, Volume and Issue: 38(2), P. 172 - 183

Published: April 20, 2017

Celery (Apium graveolens L.), one of the most important vegetables in Apiaceae family, is cultivated worldwide and utilized food cosmetic industries because it an excellent source vitamins, phenolic compounds, volatile oils other nutrients. extracts possess various medicinal properties, such as antibacterial, anti-inflammatory lowering blood glucose serum lipid levels. With rapid advancements molecular biology sequencing technology, studies on celery have been performed. Numerous markers regulatory genes discovered applied to improve celery. Research advances, including genetic breeding, genomics research, function chemical composition, regarding are reviewed this paper. Further exploration application trends briefly described. This review provides a reference for basic research celery, vegetable crop.

Language: Английский

---

Reference quality assembly of the 3.5-Gb genome of Capsicum annuum from a single linked-read library

Horticulture Research, Journal Year: 2018, Volume and Issue: 5(1)

Published: Jan. 12, 2018

Linked-Read sequencing technology has recently been employed successfully for de novo assembly of human genomes, however, the utility this complex plant genomes is unproven. We evaluated purpose by 3.5-gigabase (Gb) diploid pepper (Capsicum annuum) genome with a single library. Plant including pepper, are characterized long, highly similar repetitive sequences. Accordingly, significant effort used to ensure that sequenced homozygous and resulting haploid consensus. With phased approach, we targeted heterozygous F1 derived from wide cross assess ability derive both haplotypes characterize pungency gene large insertion/deletion. The Supernova software generated ordered, more contiguous sequence than all currently available C. annuum reference genomes. Over 83% final was anchored oriented using four publicly linkage maps. A comparison annotation conserved eukaryotic genes indicated completeness assembly. validity further demonstrated complete recovery 2.5-Kb insertion/deletion PUN1 locus in sample represents pungent nonpungent peppers, as well nearly full BUSCO2 set within each two haplotypes. most date which demonstrates library provides tool assemble This can provide an opportunity cost-effectively develop high-quality assemblies other plants compare structural differences through accurate haplotype reconstruction.

Language: Английский

---

A high-quality chromosome-level genome assembly reveals genetics for important traits in eggplant

Horticulture Research, Journal Year: 2020, Volume and Issue: 7(1)

Published: Sept. 21, 2020

Eggplant (Solanum melongena L.) is an economically important vegetable crop in the Solanaceae family, with extensive diversity among landraces and close relatives. Here, we report a high-quality reference genome for eggplant inbred line HQ-1315 (S. melongena-HQ) using combination of Illumina, Nanopore 10X genomics sequencing technologies Hi-C technology assembly. The assembled has total size ~1.17 Gb 12 chromosomes, contig N50 5.26 Mb, consisting 36,582 protein-coding genes. Repetitive sequences comprise 70.09% (811.14 Mb) genome, most which are long terminal repeat (LTR) retrotransposons (65.80%), followed by interspersed nuclear elements (LINEs, 1.54%) DNA transposons (0.85%). S. melongena-HQ carries 563 accession-specific gene families containing 1009 In total, 73 expanded (892 genes) 34 contraction (114 were functionally annotated. Comparative analysis different genomes identified three types variations, including single-nucleotide polymorphisms (SNPs), insertions/deletions (indels) structural variants (SVs). Asymmetric SV accumulation was found potential regulatory regions genes genomes. Furthermore, performed QTL-seq fruit length detected QTL interval 71.29-78.26 Mb on chromosome E03. Smechr0301963, belongs to SUN predicted be key candidate regulation. Moreover, anchored 210 linkage markers associated 71 traits chromosomes finally obtained 26 hotspots. assembly can accessed at http://eggplant-hq.cn. conclusion, presented herein provides global view genomic divergence whole-genome level powerful tools identification eggplant.

Language: Английский

---

Toward the ‘golden’ era: The status in uncovering the regulatory control of carotenoid accumulation in plants

Plant Science, Journal Year: 2019, Volume and Issue: 290, P. 110331 - 110331

Published: Nov. 5, 2019

Language: Английский

---