A survey of the sorghum transcriptome using single-molecule long reads

Abdel-Ghany, Salah E.; Hamilton, Michael; Jacobi, Jennifer L.; Ngam, Peter; Devitt, Nicholas; Schilkey, Faye; Ben-Hur, Asa; Reddy, Anireddy S.  N.

doi:10.1038/ncomms11706

A survey of the sorghum transcriptome using single-molecule long reads

Journal Article · Fri Jun 24 00:00:00 EDT 2016 · Nature Communications

DOI:https://doi.org/10.1038/ncomms11706· OSTI ID:1306471

Abdel-Ghany, Salah E. ^[1]; Hamilton, Michael; Jacobi, Jennifer L.; Ngam, Peter; Devitt, Nicholas; Schilkey, Faye; Ben-Hur, Asa; Reddy, Anireddy S. N.

Colorado State University

Alternative splicing and alternative polyadenylation (APA) of pre-mRNAs greatly contribute to transcriptome diversity, coding capacity of a genome and gene regulatory mechanisms in eukaryotes. Second-generation sequencing technologies have been extensively used to analyse transcriptomes. However, a major limitation of short-read data is that it is difficult to accurately predict full-length splice isoforms. Here we sequenced the sorghum transcriptome using Pacific Biosciences single-molecule real-time long-read isoform sequencing and developed a pipeline called TAPIS (Transcriptome Analysis Pipeline for Isoform Sequencing) to identify full-length splice isoforms and APA sites. Our analysis reveals transcriptome-wide full-length isoforms at an unprecedented scale with over 11,000 novel splice isoforms. Additionally, we uncover APA ofB11,000 expressed genes and more than 2,100 novel genes. Lastly, these results greatly enhance sorghum gene annotations and aid in studying gene regulation in this important bioenergy crop. The TAPIS pipeline will serve as a useful tool to analyse Iso-Seq data from any organism.

View Accepted Manuscript (DOE)

Research Organization:: Colorado State Univ., Fort Collins, CO (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)

Grant/Contract Number:: SC0010733

OSTI ID:: 1306471

Journal Information:: Nature Communications, Journal Name: Nature Communications Vol. 7; ISSN 2041-1723

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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Root Hair Single Cell Type Specific Profiles of Gene Expression and Alternative Polyadenylation Under Cadmium Stress Cao, Jingyi; Ye, Congting; Hao, Guijie Frontiers in Plant Science, Vol. 10 https://doi.org/10.3389/fpls.2019.00589	journal	May 2019
Expanding Alternative Splicing Identification by Integrating Multiple Sources of Transcription Data in Tomato Clark, Sarah; Yu, Feng; Gu, Lianfeng Frontiers in Plant Science, Vol. 10 https://doi.org/10.3389/fpls.2019.00689	journal	May 2019
Investigation of RNA Editing Sites within Bound Regions of RNA-Binding Proteins Weirick, Tyler; Militello, Giuseppe; Hosen, Mohammed Rabiul High-Throughput, Vol. 8, Issue 4 https://doi.org/10.3390/ht8040019	journal	November 2019
Dynamic Changes in Metabolite Accumulation and the Transcriptome during Leaf Growth and Development in Eucommia ulmoides Li, Long; Liu, Minhao; Shi, Kan International Journal of Molecular Sciences, Vol. 20, Issue 16 https://doi.org/10.3390/ijms20164030	journal	August 2019
Full-Length Transcriptome Assembly of Italian Ryegrass Root Integrated with RNA-Seq to Identify Genes in Response to Plant Cadmium Stress Hu, Zhaoyang; Zhang, Yufei; He, Yue International Journal of Molecular Sciences, Vol. 21, Issue 3 https://doi.org/10.3390/ijms21031067	journal	February 2020
Co-Expression Network Analysis of Spleen Transcriptome in Rock Bream (Oplegnathus fasciatus) Naturally Infected with Rock Bream Iridovirus (RBIV) Kim, Ahran; Yoon, Dahye; Lim, Yunjin International Journal of Molecular Sciences, Vol. 21, Issue 5 https://doi.org/10.3390/ijms21051707	journal	March 2020
Discovery of Geranylgeranyl Pyrophosphate Synthase (GGPPS) Paralogs from Haematococcus pluvialis Based on Iso-Seq Analysis and Their Function on Astaxanthin Biosynthesis Huang, Danqiong; Liu, Wenfu; Li, Anguo Marine Drugs, Vol. 17, Issue 12 https://doi.org/10.3390/md17120696	journal	December 2019
Analyses of alternative polyadenylation: from old school biochemistry to high-throughput technologies Yeh, Hsin-Sung; Zhang, Wei; Yong, Jeongsik BMB Reports, Vol. 50, Issue 4 https://doi.org/10.5483/bmbrep.2017.50.4.019	journal	April 2017
Additional file 10 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695763	dataset	January 2020
Additional file 12 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695769	dataset	January 2020
Additional file 13 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695772.v1	dataset	January 2020
Additional file 14 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695775.v1	dataset	January 2020
Additional file 15 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695778	dataset	January 2020
Additional file 17 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695784	dataset	January 2020
Additional file 18 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695787	dataset	January 2020
Additional file 1 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695793	image	January 2020
Additional file 20 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695796.v1	dataset	January 2020
Additional file 21 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695799.v1	dataset	January 2020
Additional file 3 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695805.v1	image	January 2020
Additional file 4 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695808	image	January 2020
Additional file 6 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695814	image	January 2020
Additional file 7 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695817.v1	image	January 2020
Additional file 8 of Multi-omics sequencing provides insight into floral transition in Catalpa bungei. C.A. Mey Wang, Zhi; Ma, Wenjun; Zhu, Tianqing figshare https://doi.org/10.6084/m9.figshare.12695820.v1	image	January 2020
Additional file 10 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578831.v1	dataset	January 2021
Additional file 11 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578834.v1	image	January 2021
Additional file 12 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578837	image	January 2021
Additional file 13 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578840	image	January 2021
Additional file 14 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578843	dataset	January 2021
Additional file 16 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578849	dataset	January 2021
Additional file 2 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578855.v1	dataset	January 2021
Additional file 3 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578858.v1	dataset	January 2021
Additional file 4 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578861	dataset	January 2021
Additional file 5 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578864.v1	dataset	January 2021
Additional file 6 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578867.v1	image	January 2021
Additional file 7 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578870	image	January 2021
Additional file 8 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578873	dataset	January 2021
Additional file 9 of PacBio full-length transcriptome of wild apple (Malus sieversii) provides insights into canker disease dynamic response Liu, Xiaojie; Li, Xiaoshuang; Wen, Xuejing figshare https://doi.org/10.6084/m9.figshare.13578876	dataset	January 2021
Additional file 1 of Characterization of full-length transcriptome in Saccharum officinarum and molecular insights into tiller development Yan, Haifeng; Zhou, Huiwen; Luo, Hanmin figshare https://doi.org/10.6084/m9.figshare.14650691	dataset	January 2021
Additional file 2 of Full-length transcriptome analysis reveals the mechanism of acupuncture at PC6 improves cardiac function in myocardial ischemia model Yuan, Jing; Wang, Jun-Meng; Li, Zhi-Wei figshare https://doi.org/10.6084/m9.figshare.14936109	dataset	January 2021
Additional file 1 of Comparative transcriptome analysis reveals regulatory network and regulators associated with proanthocyanidin accumulation in persimmon Zheng, Qingyou; Chen, Wenxing; Luo, Man figshare https://doi.org/10.6084/m9.figshare.15079630.v1	dataset	January 2021
Additional file 3 of Comparative transcriptome analysis reveals regulatory network and regulators associated with proanthocyanidin accumulation in persimmon Zheng, Qingyou; Chen, Wenxing; Luo, Man figshare https://doi.org/10.6084/m9.figshare.15079636	dataset	January 2021
Additional file 4 of Comparative transcriptome analysis reveals regulatory network and regulators associated with proanthocyanidin accumulation in persimmon Zheng, Qingyou; Chen, Wenxing; Luo, Man figshare https://doi.org/10.6084/m9.figshare.15079639	dataset	January 2021
Additional file 5 of Comparative transcriptome analysis reveals regulatory network and regulators associated with proanthocyanidin accumulation in persimmon Zheng, Qingyou; Chen, Wenxing; Luo, Man figshare https://doi.org/10.6084/m9.figshare.15079642	dataset	January 2021
Additional file 6 of Comparative transcriptome analysis reveals regulatory network and regulators associated with proanthocyanidin accumulation in persimmon Zheng, Qingyou; Chen, Wenxing; Luo, Man figshare https://doi.org/10.6084/m9.figshare.15079648.v1	dataset	January 2021
Additional file 5 of Transcriptomic analysis to elucidate the effects of high stocking density on grass carp (Ctenopharyngodon idella) He, Yan; Yu, Hongyan; Zhao, Honggang figshare https://doi.org/10.6084/m9.figshare.15179329.v1	dataset	January 2021
Additional file 11 of Transcriptome profiling of Malus sieversii under freezing stress after being cold-acclimated Zhou, Ping; Li, Xiaoshuang; Liu, Xiaojie figshare https://doi.org/10.6084/m9.figshare.16655739	dataset	January 2021
Additional file 13 of Transcriptome profiling of Malus sieversii under freezing stress after being cold-acclimated Zhou, Ping; Li, Xiaoshuang; Liu, Xiaojie figshare https://doi.org/10.6084/m9.figshare.16655748.v1	dataset	January 2021
Additional file 1 of Transcriptome profiling of Malus sieversii under freezing stress after being cold-acclimated Zhou, Ping; Li, Xiaoshuang; Liu, Xiaojie figshare https://doi.org/10.6084/m9.figshare.16655757	image	January 2021
Additional file 4 of Transcriptome profiling of Malus sieversii under freezing stress after being cold-acclimated Zhou, Ping; Li, Xiaoshuang; Liu, Xiaojie figshare https://doi.org/10.6084/m9.figshare.16655766.v1	image	January 2021
Additional file 5 of Transcriptome profiling of Malus sieversii under freezing stress after being cold-acclimated Zhou, Ping; Li, Xiaoshuang; Liu, Xiaojie figshare https://doi.org/10.6084/m9.figshare.16655769	image	January 2021
Additional file 6 of Transcriptome profiling of Malus sieversii under freezing stress after being cold-acclimated Zhou, Ping; Li, Xiaoshuang; Liu, Xiaojie figshare https://doi.org/10.6084/m9.figshare.16655772.v1	dataset	January 2021
Additional file 7 of Transcriptome profiling of Malus sieversii under freezing stress after being cold-acclimated Zhou, Ping; Li, Xiaoshuang; Liu, Xiaojie figshare https://doi.org/10.6084/m9.figshare.16655775	dataset	January 2021
Additional file 2 of Unveiling the transcriptomic complexity of Miscanthus sinensis using a combination of PacBio long read- and Illumina short read sequencing platforms Wang, Yongli; Li, Xia; Wang, Congsheng figshare https://doi.org/10.6084/m9.figshare.16664540.v1	dataset	January 2021
Additional file 4 of Unveiling the transcriptomic complexity of Miscanthus sinensis using a combination of PacBio long read- and Illumina short read sequencing platforms Wang, Yongli; Li, Xia; Wang, Congsheng figshare https://doi.org/10.6084/m9.figshare.16664546	dataset	January 2021
Additional file 5 of Unveiling the transcriptomic complexity of Miscanthus sinensis using a combination of PacBio long read- and Illumina short read sequencing platforms Wang, Yongli; Li, Xia; Wang, Congsheng figshare https://doi.org/10.6084/m9.figshare.16664549	dataset	January 2021
Additional file 6 of Unveiling the transcriptomic complexity of Miscanthus sinensis using a combination of PacBio long read- and Illumina short read sequencing platforms Wang, Yongli; Li, Xia; Wang, Congsheng figshare https://doi.org/10.6084/m9.figshare.16664552	dataset	January 2021
Additional file 7 of Unveiling the transcriptomic complexity of Miscanthus sinensis using a combination of PacBio long read- and Illumina short read sequencing platforms Wang, Yongli; Li, Xia; Wang, Congsheng figshare https://doi.org/10.6084/m9.figshare.16664555	dataset	January 2021
Additional file 10 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689729.v1	dataset	January 2021
Additional file 12 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689735	image	January 2021
Additional file 13 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689741.v1	dataset	January 2021
Additional file 14 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689744	dataset	January 2021
Additional file 1 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689747	image	January 2021
Additional file 2 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689750.v1	image	January 2021
Additional file 3 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689753	image	January 2021
Additional file 4 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689756.v1	dataset	January 2021
Additional file 5 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689759	dataset	January 2021
Additional file 6 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689762.v1	image	January 2021
Additional file 7 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689765.v1	dataset	January 2021
Additional file 8 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689768.v1	dataset	January 2021
Additional file 9 of Full-length transcriptome analysis and identification of transcript structures in Eimeria necatrix from different developmental stages by single-molecule real-time sequencing Gao, Yang; Suding, Zeyang; Wang, Lele figshare https://doi.org/10.6084/m9.figshare.16689771.v1	dataset	January 2021
Additional file 1 of Genome-wide association study and transcriptome of olecranon-type traits in peach (Prunus persica L.) germplasm Liu, Jianliang; Bao, Yao; Zhong, Yuming figshare https://doi.org/10.6084/m9.figshare.16696389	dataset	January 2021
Additional file 2 of Genome-wide association study and transcriptome of olecranon-type traits in peach (Prunus persica L.) germplasm Liu, Jianliang; Bao, Yao; Zhong, Yuming figshare https://doi.org/10.6084/m9.figshare.16696392.v1	image	January 2021
Additional file 3 of Genome-wide association study and transcriptome of olecranon-type traits in peach (Prunus persica L.) germplasm Liu, Jianliang; Bao, Yao; Zhong, Yuming figshare https://doi.org/10.6084/m9.figshare.16696395.v1	image	January 2021
Additional file 4 of Genome-wide association study and transcriptome of olecranon-type traits in peach (Prunus persica L.) germplasm Liu, Jianliang; Bao, Yao; Zhong, Yuming figshare https://doi.org/10.6084/m9.figshare.16696398.v1	image	January 2021
Additional file 10 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881443.v1	dataset	January 2022
Additional file 11 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881446.v1	dataset	January 2022
Additional file 12 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881449	dataset	January 2022
Additional file 13 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881452.v1	dataset	January 2022
Additional file 14 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881455.v1	dataset	January 2022
Additional file 15 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881458	dataset	January 2022
Additional file 16 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881461	dataset	January 2022
Additional file 17 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881464	image	January 2022
Additional file 18 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881467.v1	image	January 2022
Additional file 2 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881473	image	January 2022
Additional file 5 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881482	image	January 2022
Additional file 6 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881485.v1	image	January 2022
Additional file 7 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881488	image	January 2022
Additional file 8 of Single-molecule long-read sequencing analysis improves genome annotation and sheds new light on the transcripts and splice isoforms of Zoysia japonica Guan, Jin; Yin, Shuxia; Yue, Yuesen figshare https://doi.org/10.6084/m9.figshare.19881491	image	January 2022
Additional file 4 of Full-length transcriptome-referenced analysis reveals crucial roles of hormone and wounding during induction of aerial bulbils in lily Li, Jingrui; Sun, Meiyu; Li, Hui figshare https://doi.org/10.6084/m9.figshare.20688641	dataset	January 2022
Additional file 5 of Full-length transcriptome-referenced analysis reveals crucial roles of hormone and wounding during induction of aerial bulbils in lily Li, Jingrui; Sun, Meiyu; Li, Hui figshare https://doi.org/10.6084/m9.figshare.20688644.v1	dataset	January 2022
Additional file 7 of Full-length transcriptome-referenced analysis reveals crucial roles of hormone and wounding during induction of aerial bulbils in lily Li, Jingrui; Sun, Meiyu; Li, Hui figshare https://doi.org/10.6084/m9.figshare.20688650	dataset	January 2022
Additional file 2 of A survey of the full-length transcriptome of Gracilariopsis lemaneiformis using single-molecule long-read sequencing Chen, Xiaojiao; Tang, Yue Yao; Yin, Haodong figshare https://doi.org/10.6084/m9.figshare.22610090	dataset	January 2023
Additional file 1 of PacBio single-molecule long-read sequencing provides new insights into the complexity of full-length transcripts in oriental river prawn, macrobrachium nipponense Mou, Cheng-Yan; Li, Qiang; Huang, Zhi-Peng figshare https://doi.org/10.6084/m9.figshare.23550425.v1	dataset	January 2023
Additional file 2 of PacBio single-molecule long-read sequencing provides new insights into the complexity of full-length transcripts in oriental river prawn, macrobrachium nipponense Mou, Cheng-Yan; Li, Qiang; Huang, Zhi-Peng figshare https://doi.org/10.6084/m9.figshare.23550428.v1	dataset	January 2023
Additional file 3 of PacBio single-molecule long-read sequencing provides new insights into the complexity of full-length transcripts in oriental river prawn, macrobrachium nipponense Mou, Cheng-Yan; Li, Qiang; Huang, Zhi-Peng figshare https://doi.org/10.6084/m9.figshare.23550431	dataset	January 2023
Additional file 4 of PacBio single-molecule long-read sequencing provides new insights into the complexity of full-length transcripts in oriental river prawn, macrobrachium nipponense Mou, Cheng-Yan; Li, Qiang; Huang, Zhi-Peng figshare https://doi.org/10.6084/m9.figshare.23550434	dataset	January 2023
Additional file 5 of PacBio single-molecule long-read sequencing provides new insights into the complexity of full-length transcripts in oriental river prawn, macrobrachium nipponense Mou, Cheng-Yan; Li, Qiang; Huang, Zhi-Peng figshare https://doi.org/10.6084/m9.figshare.23550437	dataset	January 2023
Additional file 6 of PacBio single-molecule long-read sequencing provides new insights into the complexity of full-length transcripts in oriental river prawn, macrobrachium nipponense Mou, Cheng-Yan; Li, Qiang; Huang, Zhi-Peng figshare https://doi.org/10.6084/m9.figshare.23550440.v1	dataset	January 2023
Additional file 8 of PacBio single-molecule long-read sequencing provides new insights into the complexity of full-length transcripts in oriental river prawn, macrobrachium nipponense Mou, Cheng-Yan; Li, Qiang; Huang, Zhi-Peng figshare https://doi.org/10.6084/m9.figshare.23550446	dataset	January 2023
Additional file 11 of PacBio single-molecule long-read sequencing provides new insights into the complexity of full-length transcripts in oriental river prawn, macrobrachium nipponense Mou, Cheng-Yan; Li, Qiang; Huang, Zhi-Peng figshare https://doi.org/10.6084/m9.figshare.23550455	dataset	January 2023
Additional file 12 of PacBio single-molecule long-read sequencing provides new insights into the complexity of full-length transcripts in oriental river prawn, macrobrachium nipponense Mou, Cheng-Yan; Li, Qiang; Huang, Zhi-Peng figshare https://doi.org/10.6084/m9.figshare.23550461	dataset	January 2023
Additional file 2 of Mapping intron retention events contributing to complex traits using splice quantitative trait locus Wang, Siyuan; Wu, Hongyu; Zhao, Yongyan figshare https://doi.org/10.6084/m9.figshare.23730847	dataset	January 2023
Additional file 3 of Mapping intron retention events contributing to complex traits using splice quantitative trait locus Wang, Siyuan; Wu, Hongyu; Zhao, Yongyan figshare https://doi.org/10.6084/m9.figshare.23730850	dataset	January 2023
Additional file 4 of Mapping intron retention events contributing to complex traits using splice quantitative trait locus Wang, Siyuan; Wu, Hongyu; Zhao, Yongyan figshare https://doi.org/10.6084/m9.figshare.23730853	dataset	January 2023
Additional file 6 of Mapping intron retention events contributing to complex traits using splice quantitative trait locus Wang, Siyuan; Wu, Hongyu; Zhao, Yongyan figshare https://doi.org/10.6084/m9.figshare.23730859.v1	dataset	January 2023
Additional file 7 of Mapping intron retention events contributing to complex traits using splice quantitative trait locus Wang, Siyuan; Wu, Hongyu; Zhao, Yongyan figshare https://doi.org/10.6084/m9.figshare.23730862	dataset	January 2023
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