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Kara MF, Guo W, Zhang R, Denby K. LsRTDv1, a reference transcript dataset for accurate transcript-specific expression analysis in lettuce. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024. [PMID: 39145419 DOI: 10.1111/tpj.16978] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/25/2024] [Revised: 06/20/2024] [Accepted: 07/31/2024] [Indexed: 08/16/2024]
Abstract
Accurate quantification of gene and transcript-specific expression, with the underlying knowledge of precise transcript isoforms, is crucial to understanding many biological processes. Analysis of RNA sequencing data has benefited from the development of alignment-free algorithms which enhance the precision and speed of expression analysis. However, such algorithms require a reference transcriptome. Here we generate a reference transcript dataset (LsRTDv1) for lettuce (cv. Saladin), combining long- and short-read sequencing with publicly available transcriptome annotations, and filtering to keep only transcripts with high-confidence splice junctions and transcriptional start and end sites. LsRTDv1 identifies novel genes (mostly long non-coding RNAs) and increases the number of transcript isoforms per gene in the lettuce genome from 1.4 to 2.7. We show that LsRTDv1 significantly increases the mapping rate of RNA-seq data from a lettuce time-series experiment (mock- and Botrytis cinerea-inoculated) and enables detection of genes that are differentially alternatively spliced in response to infection as well as transcript-specific expression changes. LsRTDv1 is a valuable resource for investigation of transcriptional and alternative splicing regulation in lettuce.
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Affiliation(s)
- Mehmet Fatih Kara
- Biology Department, Centre for Novel Agricultural Products (CNAP), University of York, Wentworth Way, York, YO10 5DD, UK
| | - Wenbin Guo
- Information and Computational Sciences, James Hutton Institute, Dundee, DD2 5DA, UK
| | - Runxuan Zhang
- Information and Computational Sciences, James Hutton Institute, Dundee, DD2 5DA, UK
| | - Katherine Denby
- Biology Department, Centre for Novel Agricultural Products (CNAP), University of York, Wentworth Way, York, YO10 5DD, UK
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2
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Kim T, Egesa A, Qin C, Mather H, Sandoya G, Begcy K. Global identification of LIM genes in response to different heat stress regimes in Lactuca sativa. BMC PLANT BIOLOGY 2024; 24:751. [PMID: 39103763 DOI: 10.1186/s12870-024-05466-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2024] [Accepted: 07/29/2024] [Indexed: 08/07/2024]
Abstract
BACKGROUND LIM (Lineage-11 (LIN-11), Insulin-1 (ISL-1), and Mechanotransduction-3 (MEC-3)) genes belong to a family that hold ubiquitous properties contributing to organ, seed, and pollen development as well as developmental and cellular responses to biotic and abiotic stresses. Lettuce (Lactuca sativa) is a highly consumed vegetable crop susceptible heat stress. High temperatures limit lettuce's overall yield, quality and marketability. Lettuce LIM genes have not been identified and their role in response to high temperatures is not known. Aiming to identify potential new targets for thermoresilience, we searched for LIM genes in lettuce and compared them with orthologous of several dicotyledons and monocotyledons plant species. RESULTS We identified fourteen lettuce LIM genes distributed into eight different subgroups using a genome-wide analysis strategy. Three belonging to DAR (DA means "large" in Chinese) class I, two DAR class II, one in the WLIM1, two in the WLIM2, one in the PLIM1, two in the PLIM2 class, one ßLIM and two δLIMs. No DAR-like were identified in any of the species analyzed including lettuce. Interestingly, unlike other gene families in lettuce which underwent large genome tandem duplications, LIM genes did not increase in number compared to other plant species. The response to heat stress induced a dynamic transcriptional response on LsLIM genes. All heat stress regimes, including night stress, day stress and day and night stress were largely responsible for changes in LIM transcriptional expression. CONCLUSIONS Our global analysis at the genome level provides a detailed identification of LIM genes in lettuce and other dicotyledonous and monocotyledonous plant species. Gene structure, physical and chemical properties as well as chromosomal location and Cis-regulatory element analysis together with our gene expression analysis under different temperature regimes identified LsWLIM1, LsWLIM2b, LsDAR3 and LsDAR5 as candidate genes that could be used by breeding programs aiming to produce lettuce varieties able to withstand high temperatures.
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Affiliation(s)
- Taehoon Kim
- Environmental Horticulture Department, University of Florida, Gainesville, FL, 32611, USA
| | - Andrew Egesa
- Environmental Horticulture Department, University of Florida, Gainesville, FL, 32611, USA
| | - Claire Qin
- Environmental Horticulture Department, University of Florida, Gainesville, FL, 32611, USA
- Student Science Training Program, University of Florida, Gainesville, FL, 32611, USA
| | - Hannah Mather
- Environmental Horticulture Department, University of Florida, Gainesville, FL, 32611, USA
- Horticultural Science Department, University of Florida, Gainesville, FL, 32611, USA
| | - Germán Sandoya
- Horticultural Science Department, University of Florida, Gainesville, FL, 32611, USA
- Everglades Research and Education Center, Horticultural Sciences Department, University of Florida IFAS, Belle Glade, FL, 33430, USA
| | - Kevin Begcy
- Environmental Horticulture Department, University of Florida, Gainesville, FL, 32611, USA.
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3
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Shi ZX, Xiang L, Zhao HM, Yang LQ, Chen ZC, Pu YQ, Li YW, Luo B, Cai QY, Liu BL, Feng NX, Li H, Li QX, Tang C, Mo CH. High-throughput single-molecule long-read RNA sequencing analysis of tissue-specific genes and isoforms in lettuce (Lactuca sativa L.). Commun Biol 2024; 7:920. [PMID: 39080448 PMCID: PMC11289301 DOI: 10.1038/s42003-024-06598-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2024] [Accepted: 07/17/2024] [Indexed: 08/02/2024] Open
Abstract
Lettuce is one of the most widely cultivated and consumed dicotyledonous vegetables globally. Despite the availability of its reference genome sequence, lettuce gene annotation remains incomplete, impeding comprehensive research and the broad application of genomic resources. Long-read RNA isoform sequencing (Iso-Seq) offers substantial advantages for analyzing RNA alternative splicing and aiding gene annotation, yet it faces throughput limitations. We present the HIT-ISOseq method tailored for bulk sample analysis, significantly enhancing RNA sequencing throughput on the PacBio platform by concatenating cDNA. Here we show, HIT-ISOseq generates 3-4 cDNA molecules per CCS read in lettuce, yielding 15.7 million long reads per PacBio Sequel II SMRT Cell 8 M. We validate its effectiveness in analyzing six lettuce tissue samples, including roots, stems, and leaves, revealing tissue-specific gene expression patterns and RNA isoforms. Leveraging diverse tissue long-read RNA sequencing, we refine the transcript annotation of the lettuce reference genome, expanding its GO and KEGG annotation repertoire. Collectively, this study serves as a foundational reference for genome annotation and the analysis of multi-sample isoform expression, utilizing high-throughput long-read transcriptome sequencing.
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Affiliation(s)
- Zhuo-Xing Shi
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China
- BGI Genomics, BGI-Shenzhen, Shenzhen, China
| | - Lei Xiang
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China
| | - Hai-Ming Zhao
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China
| | - Lang-Qi Yang
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China
| | | | - Yu-Qing Pu
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China
| | - Yan-Wen Li
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China
| | - Bei Luo
- BGI Genomics, BGI-Shenzhen, Shenzhen, China
| | - Quan-Ying Cai
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China
| | - Bai-Lin Liu
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China
| | - Nai-Xian Feng
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China
| | - Hui Li
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China
| | - Qing X Li
- Department of Molecular Biosciences and Bioengineering, University of Hawaii at Manoa, Honolulu, HI, 96822, USA
| | - Chong Tang
- BGI Genomics, BGI-Shenzhen, Shenzhen, China.
| | - Ce-Hui Mo
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China.
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Cao S, Sawettalake N, Li P, Fan S, Shen L. DNA methylation variations underlie lettuce domestication and divergence. Genome Biol 2024; 25:158. [PMID: 38886807 PMCID: PMC11184767 DOI: 10.1186/s13059-024-03310-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2023] [Accepted: 06/14/2024] [Indexed: 06/20/2024] Open
Abstract
BACKGROUND Lettuce (Lactuca sativa L.) is an economically important vegetable crop worldwide. Lettuce is believed to be domesticated from a single wild ancestor Lactuca serriola and subsequently diverged into two major morphologically distinct vegetable types: leafy lettuce and stem lettuce. However, the role of epigenetic variation in lettuce domestication and divergence remains largely unknown. RESULTS To understand the genetic and epigenetic basis underlying lettuce domestication and divergence, we generate single-base resolution DNA methylomes from 52 Lactuca accessions, including major lettuce cultivars and wild relatives. We find a significant increase of DNA methylation during lettuce domestication and uncover abundant epigenetic variations associated with lettuce domestication and divergence. Interestingly, DNA methylation variations specifically associated with leafy and stem lettuce are related to regulation and metabolic processes, respectively, while those associated with both types are enriched in stress responses. Moreover, we reveal that domestication-induced DNA methylation changes could influence expression levels of nearby and distal genes possibly through affecting chromatin accessibility and chromatin loop. CONCLUSION Our study provides population epigenomic insights into crop domestication and divergence and valuable resources for further domestication for diversity and epigenetic breeding to boost crop improvement.
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Affiliation(s)
- Shuai Cao
- Temasek Life Sciences Laboratory, 1 Research Link, National University of Singapore, Singapore, 117604, Singapore
| | - Nunchanoke Sawettalake
- Temasek Life Sciences Laboratory, 1 Research Link, National University of Singapore, Singapore, 117604, Singapore
| | - Ping Li
- Temasek Life Sciences Laboratory, 1 Research Link, National University of Singapore, Singapore, 117604, Singapore
| | - Sheng Fan
- Temasek Life Sciences Laboratory, 1 Research Link, National University of Singapore, Singapore, 117604, Singapore
| | - Lisha Shen
- Temasek Life Sciences Laboratory, 1 Research Link, National University of Singapore, Singapore, 117604, Singapore.
- Department of Biological Sciences, Faculty of Science, National University of Singapore, Singapore, 117543, Singapore.
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Zhu Y, Wang Z, Zhou Z, Liu Y, Gao X, Guo W, Shi J. HEMU: An integrated comparative genomics database and analysis platform for Andropogoneae grasses. PLANT COMMUNICATIONS 2024; 5:100786. [PMID: 38155575 PMCID: PMC11009152 DOI: 10.1016/j.xplc.2023.100786] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2023] [Revised: 12/05/2023] [Accepted: 12/26/2023] [Indexed: 12/30/2023]
Abstract
This study reports an online database and analysis platform HEMU, which integrates 75 genome assemblies from 20 unique species, large amounts of multi-omics data, and six sophisticated analysis toolkits. HEMU will facilitate comparative genomics analysis within the tribe Andropogoneae.
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Affiliation(s)
- Yuzhi Zhu
- School of Agriculture, Shenzhen Campus of Sun Yat-sen University, Sun Yat-sen University, Shenzhen 518107, China
| | - Zijie Wang
- School of Agriculture, Shenzhen Campus of Sun Yat-sen University, Sun Yat-sen University, Shenzhen 518107, China
| | - Zanchen Zhou
- School of Agriculture, Shenzhen Campus of Sun Yat-sen University, Sun Yat-sen University, Shenzhen 518107, China
| | - Yuting Liu
- School of Agriculture, Shenzhen Campus of Sun Yat-sen University, Sun Yat-sen University, Shenzhen 518107, China
| | - Xiang Gao
- School of Agriculture, Shenzhen Campus of Sun Yat-sen University, Sun Yat-sen University, Shenzhen 518107, China
| | - Weilong Guo
- Frontiers Science Center for Molecular Design Breeding, Key Laboratory of Crop Heterosis and Utilization (MOE), and Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing 100193, China
| | - Junpeng Shi
- School of Agriculture, Shenzhen Campus of Sun Yat-sen University, Sun Yat-sen University, Shenzhen 518107, China.
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Xiong W, van Workum DJM, Berke L, Bakker LV, Schijlen E, Becker FFM, van de Geest H, Peters S, Michelmore R, van Treuren R, Jeuken M, Smit S, Schranz ME. Genome assembly and analysis of Lactuca virosa: implications for lettuce breeding. G3 (BETHESDA, MD.) 2023; 13:jkad204. [PMID: 37740775 PMCID: PMC10627274 DOI: 10.1093/g3journal/jkad204] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2023] [Revised: 07/16/2023] [Accepted: 07/19/2023] [Indexed: 09/25/2023]
Abstract
Lettuce (Lactuca sativa L.) is a leafy vegetable crop with ongoing breeding efforts related to quality, resilience, and innovative production systems. To breed resilient and resistant lettuce in the future, valuable genetic variation found in close relatives could be further exploited. Lactuca virosa (2x = 2n = 18), a wild relative assigned to the tertiary lettuce gene pool, has a much larger genome (3.7 Gbp) than Lactuca sativa (2.5 Gbp). It has been used in interspecific crosses and is a donor to modern crisphead lettuce cultivars. Here, we present a de novo reference assembly of L. virosa with high continuity and complete gene space. This assembly facilitated comparisons to the genome of L. sativa and to that of the wild species L. saligna, a representative of the secondary lettuce gene pool. To assess the diversity in gene content, we classified the genes of the 3 Lactuca species as core, accessory, and unique. In addition, we identified 3 interspecific chromosomal inversions compared to L. sativa, which each may cause recombination suppression and thus hamper future introgression breeding. Using 3-way comparisons in both reference-based and reference-free manners, we show that the proliferation of long-terminal repeat elements has driven the genome expansion of L. virosa. Further, we performed a genome-wide comparison of immune genes, nucleotide-binding leucine-rich repeat, and receptor-like kinases among Lactuca spp. and indicated the evolutionary patterns and mechanisms behind their expansions. These genome analyses greatly facilitate the understanding of genetic variation in L. virosa, which is beneficial for the breeding of improved lettuce varieties.
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Affiliation(s)
- Wei Xiong
- Biosystematics Group, Wageningen University & Research, P.O. Box 16, Wageningen, 6700 AA, The Netherlands
| | - Dirk-Jan M van Workum
- Bioinformatics Group, Wageningen University & Research, P.O. Box 633, Wageningen, 6700 AP, The Netherlands
| | - Lidija Berke
- Biosystematics Group, Wageningen University & Research, P.O. Box 16, Wageningen, 6700 AA, The Netherlands
| | - Linda V Bakker
- Bioscience, Wageningen University & Research, P.O. Box 16, Wageningen, 6700 AA, The Netherlands
| | - Elio Schijlen
- Bioscience, Wageningen University & Research, P.O. Box 16, Wageningen, 6700 AA, The Netherlands
| | - Frank F M Becker
- Biosystematics Group, Wageningen University & Research, P.O. Box 16, Wageningen, 6700 AA, The Netherlands
- Laboratory of Genetics, Wageningen University & Research, P.O. Box 16, Wageningen, 6700 AA, The Netherlands
| | - Henri van de Geest
- Bioscience, Wageningen University & Research, P.O. Box 16, Wageningen, 6700 AA, The Netherlands
| | - Sander Peters
- Bioscience, Wageningen University & Research, P.O. Box 16, Wageningen, 6700 AA, The Netherlands
| | - Richard Michelmore
- The Genome Center, Genome & Biomedical Sciences Facility, University of California, Davis, 451 East Health Sciences Drive, Davis, CA 95616-8816, USA
| | - Rob van Treuren
- Centre for Genetic Resources, the Netherlands (CGN), Wageningen University & Research, P.O. Box 16, Wageningen, 6700 AA, The Netherlands
| | - Marieke Jeuken
- Plant Breeding Group, Wageningen University & Research, P.O. Box 386, Wageningen, 6700 AJ, The Netherlands
| | - Sandra Smit
- Bioinformatics Group, Wageningen University & Research, P.O. Box 633, Wageningen, 6700 AP, The Netherlands
| | - M Eric Schranz
- Biosystematics Group, Wageningen University & Research, P.O. Box 16, Wageningen, 6700 AA, The Netherlands
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7
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Shen F, Qin Y, Wang R, Huang X, Wang Y, Gao T, He J, Zhou Y, Jiao Y, Wei J, Li L, Yang X. Comparative genomics reveals a unique nitrogen-carbon balance system in Asteraceae. Nat Commun 2023; 14:4334. [PMID: 37474573 PMCID: PMC10359422 DOI: 10.1038/s41467-023-40002-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2022] [Accepted: 07/07/2023] [Indexed: 07/22/2023] Open
Abstract
The Asteraceae (daisy family) is one of the largest families of plants. The genetic basis for its high biodiversity and excellent adaptability has not been elucidated. Here, we compare the genomes of 29 terrestrial plant species, including two de novo chromosome-scale genome assemblies for stem lettuce, a member of Asteraceae, and Scaevola taccada, a member of Goodeniaceae that is one of the closest outgroups of Asteraceae. We show that Asteraceae originated ~80 million years ago and experienced repeated paleopolyploidization. PII, the universal regulator of nitrogen-carbon (N-C) assimilation present in almost all domains of life, has conspicuously lost across Asteraceae. Meanwhile, Asteraceae has stepwise upgraded the N-C balance system via paleopolyploidization and tandem duplications of key metabolic genes, resulting in enhanced nitrogen uptake and fatty acid biosynthesis. In addition to suggesting a molecular basis for their ecological success, the unique N-C balance system reported for Asteraceae offers a potential crop improvement strategy.
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Affiliation(s)
- Fei Shen
- Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Institute of Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, 100097, Beijing, China
| | - Yajuan Qin
- Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Institute of Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, 100097, Beijing, China
| | - Rui Wang
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, College of Horticulture, China Agricultural University, 100193, Beijing, China
| | - Xin Huang
- Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Institute of Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, 100097, Beijing, China
| | - Ying Wang
- Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Institute of Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, 100097, Beijing, China
- State Key Laboratory of Protein and Plant Gene Research, School of Advanced Agricultural Sciences, Peking University, 100871, Beijing, China
| | - Tiangang Gao
- State Key Laboratory of Evolutionary and Systematic Botany, Institute of Botany, the Chinese Academy of Sciences, 100093, Beijing, China
| | - Junna He
- Beijing Key Laboratory of Development and Quality Control of Ornamental Crops, College of Horticulture, China Agricultural University, 100193, Beijing, China
| | - Yue Zhou
- State Key Laboratory of Protein and Plant Gene Research, School of Advanced Agricultural Sciences, Peking University, 100871, Beijing, China
| | - Yuannian Jiao
- State Key Laboratory of Evolutionary and Systematic Botany, Institute of Botany, the Chinese Academy of Sciences, 100093, Beijing, China
| | - Jianhua Wei
- Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Institute of Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, 100097, Beijing, China.
| | - Lei Li
- State Key Laboratory of Protein and Plant Gene Research, School of Advanced Agricultural Sciences, Peking University, 100871, Beijing, China.
| | - Xiaozeng Yang
- Beijing Key Laboratory of Agricultural Genetic Resources and Biotechnology, Institute of Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, 100097, Beijing, China.
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Guo Z, Wei J, Xu Z, Lin C, Peng Y, Wang Q, Wang D, Yang X, Xu KW. HollyGTD: an integrated database for holly (Aquifoliaceae) genome and taxonomy. FRONTIERS IN PLANT SCIENCE 2023; 14:1220925. [PMID: 37469783 PMCID: PMC10352911 DOI: 10.3389/fpls.2023.1220925] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/11/2023] [Accepted: 06/16/2023] [Indexed: 07/21/2023]
Affiliation(s)
- Zhonglong Guo
- Co−Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing, China
| | - Junrong Wei
- Co−Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing, China
| | - Zhenxiu Xu
- Co−Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing, China
| | - Chenxue Lin
- Co−Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing, China
| | - Ye Peng
- Co−Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing, China
| | - Qi Wang
- Co−Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing, China
| | - Dong Wang
- Institute of Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
- WeiRan Biotech, Beijing, China
| | - Xiaozeng Yang
- Institute of Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Ke-Wang Xu
- Co−Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing, China
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Beracochea V, Stritzler M, Radonic L, Bottero E, Jozefkowicz C, Darqui F, Ayub N, Bilbao ML, Soto G. CRISPR/Cas9-mediated knockout of SPL13 radically increases lettuce yield. PLANT CELL REPORTS 2023; 42:645-647. [PMID: 36478032 DOI: 10.1007/s00299-022-02952-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2022] [Accepted: 11/04/2022] [Indexed: 06/17/2023]
Affiliation(s)
- Valeria Beracochea
- Instituto de Agrobiotecnología Y Biología Molecular (IABIMO), Instituto Nacional de Tecnología Agropecuaria (INTA) and Consejo Nacional de Investigaciones Científicas Y Técnicas (CONICET), , Hurlingham, Argentina
| | - Margarita Stritzler
- Instituto de Agrobiotecnología Y Biología Molecular (IABIMO), Instituto Nacional de Tecnología Agropecuaria (INTA) and Consejo Nacional de Investigaciones Científicas Y Técnicas (CONICET), , Hurlingham, Argentina
- Instituto de Genética (IGEAF), Instituto Nacional de Tecnología Agropecuaria (INTA), Hurlingham, Argentina
| | - Laura Radonic
- Instituto de Agrobiotecnología Y Biología Molecular (IABIMO), Instituto Nacional de Tecnología Agropecuaria (INTA) and Consejo Nacional de Investigaciones Científicas Y Técnicas (CONICET), , Hurlingham, Argentina
| | - Emilia Bottero
- Instituto de Agrobiotecnología Y Biología Molecular (IABIMO), Instituto Nacional de Tecnología Agropecuaria (INTA) and Consejo Nacional de Investigaciones Científicas Y Técnicas (CONICET), , Hurlingham, Argentina
- Instituto de Genética (IGEAF), Instituto Nacional de Tecnología Agropecuaria (INTA), Hurlingham, Argentina
| | - Cintia Jozefkowicz
- Instituto de Agrobiotecnología Y Biología Molecular (IABIMO), Instituto Nacional de Tecnología Agropecuaria (INTA) and Consejo Nacional de Investigaciones Científicas Y Técnicas (CONICET), , Hurlingham, Argentina
- Instituto de Genética (IGEAF), Instituto Nacional de Tecnología Agropecuaria (INTA), Hurlingham, Argentina
| | - Flavia Darqui
- Instituto de Agrobiotecnología Y Biología Molecular (IABIMO), Instituto Nacional de Tecnología Agropecuaria (INTA) and Consejo Nacional de Investigaciones Científicas Y Técnicas (CONICET), , Hurlingham, Argentina
| | - Nicolás Ayub
- Instituto de Agrobiotecnología Y Biología Molecular (IABIMO), Instituto Nacional de Tecnología Agropecuaria (INTA) and Consejo Nacional de Investigaciones Científicas Y Técnicas (CONICET), , Hurlingham, Argentina
- Instituto de Genética (IGEAF), Instituto Nacional de Tecnología Agropecuaria (INTA), Hurlingham, Argentina
| | - Marisa López Bilbao
- Instituto de Agrobiotecnología Y Biología Molecular (IABIMO), Instituto Nacional de Tecnología Agropecuaria (INTA) and Consejo Nacional de Investigaciones Científicas Y Técnicas (CONICET), , Hurlingham, Argentina
| | - Gabriela Soto
- Instituto de Agrobiotecnología Y Biología Molecular (IABIMO), Instituto Nacional de Tecnología Agropecuaria (INTA) and Consejo Nacional de Investigaciones Científicas Y Técnicas (CONICET), , Hurlingham, Argentina.
- Instituto de Genética (IGEAF), Instituto Nacional de Tecnología Agropecuaria (INTA), Hurlingham, Argentina.
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