Additional file 2: of Integration of small RNAs and transcriptome sequencing uncovers a complex regulatory network during vernalization and heading stages of orchardgrass (Dactylis glomerata L.)

Additional file 1: Figure S1. of Comprehensive transcriptome analysis reveals distinct regulatory programs during vernalization and floral bud development of orchardgrass (Dactylis glomerata L.)

Guangyan Feng (4436689)
Linkai Huang (546829)
Ji Li (207201)
Jianping Wang (215292)
Lei Xu (78676)
Ling Pan (419743)
Xinxin Zhao (317779)
Xia Wang (36364)
Ting Huang (190932)
Xinquan Zhang (546832)

November 2017

The photo of orchardgrass in different stages. Including stage before vernalization (BV_DON); vernal...

Additional file 2: Figure S1. of Identification of Nicotiana benthamiana microRNAs and their targets using high throughput sequencing and degradome analysis

Ivett Baksa (3484013)
Tibor Nagy (425445)
Endre Barta (5939)
Zoltán Havelda (3484010)
Éva Várallyay (3484007)
Dániel Silhavy (22606)
József Burgyán (222071)
György Szittya (3484016)

December 2015

Quantification of miRNAs by RT-qPCR. Validation of (A) Nb-miRNA167 and (B) Nb-miR482 expression by R...

Additional file 1: of Identification and characterisation of microRNAs and their target genes in phosphate-starved Nicotiana benthamiana by small RNA deep sequencing and 5âRACE analysis

Amanda Huen (6093488)
Julia Bally (204199)
Penelope Smith (3196053)

December 2018

Table S1. Microsoft Excel Worksheet (.xlsx). sRNA deep sequencing read matches to predicted pri-miRN...

Additional file 3: of Integration of small RNAs and transcriptome sequencing uncovers a complex regulatory network during vernalization and heading stages of orchardgrass (Dactylis glomerata L.)

Guangyan Feng (4436689)
Lei Xu (78676)
Jianping Wang (215292)
Gang Nie (1643194)
Bradley Bushman (5816930)
Wengang Xie (3945377)
Haidong Yan (102955)
Zhongfu Yang (4436686)
Hao Guan (498369)
Linkai Huang (546829)
Xinquan Zhang (546832)

October 2018

Table S11. The primers used for qRT-PCR. Table S12. Targets of miRNAs in the BV stage, VE stage, and...

Additional file 1: of Integration of small RNAs and transcriptome sequencing uncovers a complex regulatory network during vernalization and heading stages of orchardgrass (Dactylis glomerata L.)

Guangyan Feng (4436689)
Lei Xu (78676)
Jianping Wang (215292)
Gang Nie (1643194)
Bradley Bushman (5816930)
Wengang Xie (3945377)
Haidong Yan (102955)
Zhongfu Yang (4436686)
Hao Guan (498369)
Linkai Huang (546829)
Xinquan Zhang (546832)

October 2018

Table S1. Summary statistics of RNA sequencing in different samples. Table S2. Summary of transcript...

Additional file 5: of Integration of small RNAs and transcriptome sequencing uncovers a complex regulatory network during vernalization and heading stages of orchardgrass (Dactylis glomerata L.)

Guangyan Feng (4436689)
Lei Xu (78676)
Jianping Wang (215292)
Gang Nie (1643194)
Bradley Bushman (5816930)
Wengang Xie (3945377)
Haidong Yan (102955)
Zhongfu Yang (4436686)
Hao Guan (498369)
Linkai Huang (546829)
Xinquan Zhang (546832)

October 2018

Figure S3. The definition of sampling point and the photographs of D.glomerata at five developmental...

Additional file 4: of Integration of small RNAs and transcriptome sequencing uncovers a complex regulatory network during vernalization and heading stages of orchardgrass (Dactylis glomerata L.)

Guangyan Feng (4436689)
Lei Xu (78676)
Jianping Wang (215292)
Gang Nie (1643194)
Bradley Bushman (5816930)
Wengang Xie (3945377)
Haidong Yan (102955)
Zhongfu Yang (4436686)
Hao Guan (498369)
Linkai Huang (546829)
Xinquan Zhang (546832)

October 2018

Figure S2. WGCNA of DEGs in different stages. (A) Hierarchical cluster tree showing coexpression mod...

Additional file 2: of Small RNA profiling for identification of miRNAs involved in regulation of saponins biosynthesis in Chlorophytum borivilianum

Monika Kajal (4722342)
Kashmir Singh (501360)

December 2017

Known miRNAs identified in young leaf small RNA population of C. borivilianum. (XLSX 31Â kb

Additional file 1: of Analysis of Brachypodium miRNA targets: evidence for diverse control during stress and conservation in bioenergy crops

Karl Franke (5541998)
Skye Schmidt (5541995)
Sunhee Park (1700167)
Dong-Hoon Jeong (3567239)
Monica Accerbi (5541992)
Pamela Green (5195390)

July 2018

Table S1. RNAseq Libraries. Summary statistics of Brachypodium RNAseq libraries. Table S2. BDI Promi...

Additional file 2: of Complex regulation of microRNAs in roots of competitively-grown isogenic Nicotiana attenuata plants with different capacities to interact with arbuscular mycorrhizal fungi

Priyanka Pandey (104863)
Ming Wang (172316)
Ian Baldwin (3286581)
Shree Pandey (4049170)
Karin Groten (550927)

December 2018

Table S2. Mature miRNAs conserved to other species when mapped against 72 plant species in miRBase. ...

Additional file 5: of miRNAs involved in the development and differentiation of fertile and sterile flowers in Viburnum macrocephalum f. keteleeri

Weixing Li (1439725)
Zhichong He (4513138)
Li Zhang (8200)
Zhaogeng Lu (4513141)
Jing Xu (1234089)
Jiawen Cui (4513135)
Li Wang (15202)
Biao Jin (279879)

October 2017

Fold-back structures for known miRNA from Viburnum macrocephalum f. keteleeri. Precursor sequences f...

Additional file 2: of A combined small RNA and transcriptome sequencing analysis reveal regulatory roles of miRNAs during anther development of Upland cotton carrying cytoplasmic male sterile Gossypium harknessii (D2) cytoplasm

Bingbing Zhang (414104)
Xuexian Zhang (3860368)
Guoyuan Liu (3860371)
Liping Guo (596697)
Tingxiang Qi (3860374)
Meng Zhang (154027)
Xue Li (285380)
Hailin Wang (67695)
Huini Tang (3860359)
Xiuqin Qiao (3860365)
Wenfeng Pei (843644)
Kashif Shahzad (5868347)
Chaozhu Xing (3860362)
Jinfa Zhang (121196)
Jianyong Wu (190201)

October 2018

Table S2. Information of conserved and non-conserved miRNA family in A, B, and R lines. (XLSX 24Â kb

Additional file 2: of Identification and characterisation of microRNAs and their target genes in phosphate-starved Nicotiana benthamiana by small RNA deep sequencing and 5âRACE analysis

Amanda Huen (6093488)
Julia Bally (204199)
Penelope Smith (3196053)

December 2018

Figure S1. Microsoft PowerPoint Presentation (.pptx). Predicted structures for N. benthamiana pri-mi...

Additional file 2: Table S1. of Small RNA and degradome profiling reveals miRNA regulation in the seed germination of ancient eudicot Nelumbo nucifera

Jihong Hu (384604)
Jing Jin (18601)
Qian Qian (45749)
Keke Huang (703621)
Yi Ding (172783)

August 2016

Detailed information of the known miRNAs identified in sacred lotus during seed germination. Table S...

Additional file 3: Table S2. of Gene silencing pathways found in the green alga Volvox carteri reveal insights into evolution and origins of small RNA systems in plants

Anne Dueck (145404)
Maurits Evers (3151764)
Stefan Henz (3486401)
Katharina Unger (3486404)
Norbert Eichner (3486407)
Rainer Merkl (3117)
Eugene Berezikov (9900)
Julia Engelmann (3440546)
Detlef Weigel (54320)
Stephan Wenzl (3486410)
Gunter Meister (47028)

November 2016

Full list of identified miRNA sequences in this study. The table shows the location and sequence of ...

Additional file 1: Figure S1. of Comprehensive transcriptome analysis reveals distinct regulatory programs during vernalization and floral bud development of orchardgrass (Dactylis glomerata L.)

Guangyan Feng (4436689)
Linkai Huang (546829)
Ji Li (207201)
Jianping Wang (215292)
Lei Xu (78676)
Ling Pan (419743)
Xinxin Zhao (317779)
Xia Wang (36364)
Ting Huang (190932)
Xinquan Zhang (546832)

November 2017

The photo of orchardgrass in different stages. Including stage before vernalization (BV_DON); vernal...

Additional file 2: Figure S1. of Identification of Nicotiana benthamiana microRNAs and their targets using high throughput sequencing and degradome analysis

Ivett Baksa (3484013)
Tibor Nagy (425445)
Endre Barta (5939)
Zoltán Havelda (3484010)
Éva Várallyay (3484007)
Dániel Silhavy (22606)
József Burgyán (222071)
György Szittya (3484016)

December 2015

Quantification of miRNAs by RT-qPCR. Validation of (A) Nb-miRNA167 and (B) Nb-miR482 expression by R...

Additional file 1: of Identification and characterisation of microRNAs and their target genes in phosphate-starved Nicotiana benthamiana by small RNA deep sequencing and 5âRACE analysis

Amanda Huen (6093488)
Julia Bally (204199)
Penelope Smith (3196053)

December 2018

Table S1. Microsoft Excel Worksheet (.xlsx). sRNA deep sequencing read matches to predicted pri-miRN...

Additional file 3: of Integration of small RNAs and transcriptome sequencing uncovers a complex regulatory network during vernalization and heading stages of orchardgrass (Dactylis glomerata L.)

Guangyan Feng (4436689)
Lei Xu (78676)
Jianping Wang (215292)
Gang Nie (1643194)
Bradley Bushman (5816930)
Wengang Xie (3945377)
Haidong Yan (102955)
Zhongfu Yang (4436686)
Hao Guan (498369)
Linkai Huang (546829)
Xinquan Zhang (546832)

October 2018

Table S11. The primers used for qRT-PCR. Table S12. Targets of miRNAs in the BV stage, VE stage, and...

Additional file 1: of Integration of small RNAs and transcriptome sequencing uncovers a complex regulatory network during vernalization and heading stages of orchardgrass (Dactylis glomerata L.)

Guangyan Feng (4436689)
Lei Xu (78676)
Jianping Wang (215292)
Gang Nie (1643194)
Bradley Bushman (5816930)
Wengang Xie (3945377)
Haidong Yan (102955)
Zhongfu Yang (4436686)
Hao Guan (498369)
Linkai Huang (546829)
Xinquan Zhang (546832)

October 2018

Table S1. Summary statistics of RNA sequencing in different samples. Table S2. Summary of transcript...

Additional file 5: of Integration of small RNAs and transcriptome sequencing uncovers a complex regulatory network during vernalization and heading stages of orchardgrass (Dactylis glomerata L.)

Guangyan Feng (4436689)
Lei Xu (78676)
Jianping Wang (215292)
Gang Nie (1643194)
Bradley Bushman (5816930)
Wengang Xie (3945377)
Haidong Yan (102955)
Zhongfu Yang (4436686)
Hao Guan (498369)
Linkai Huang (546829)
Xinquan Zhang (546832)

October 2018

Figure S3. The definition of sampling point and the photographs of D.glomerata at five developmental...

Additional file 4: of Integration of small RNAs and transcriptome sequencing uncovers a complex regulatory network during vernalization and heading stages of orchardgrass (Dactylis glomerata L.)

Guangyan Feng (4436689)
Lei Xu (78676)
Jianping Wang (215292)
Gang Nie (1643194)
Bradley Bushman (5816930)
Wengang Xie (3945377)
Haidong Yan (102955)
Zhongfu Yang (4436686)
Hao Guan (498369)
Linkai Huang (546829)
Xinquan Zhang (546832)

October 2018

Figure S2. WGCNA of DEGs in different stages. (A) Hierarchical cluster tree showing coexpression mod...

Additional file 2: of Small RNA profiling for identification of miRNAs involved in regulation of saponins biosynthesis in Chlorophytum borivilianum

Monika Kajal (4722342)
Kashmir Singh (501360)

December 2017

Known miRNAs identified in young leaf small RNA population of C. borivilianum. (XLSX 31Â kb

Additional file 1: of Analysis of Brachypodium miRNA targets: evidence for diverse control during stress and conservation in bioenergy crops

Karl Franke (5541998)
Skye Schmidt (5541995)
Sunhee Park (1700167)
Dong-Hoon Jeong (3567239)
Monica Accerbi (5541992)
Pamela Green (5195390)

July 2018

Table S1. RNAseq Libraries. Summary statistics of Brachypodium RNAseq libraries. Table S2. BDI Promi...

Additional file 2: of Complex regulation of microRNAs in roots of competitively-grown isogenic Nicotiana attenuata plants with different capacities to interact with arbuscular mycorrhizal fungi

Priyanka Pandey (104863)
Ming Wang (172316)
Ian Baldwin (3286581)
Shree Pandey (4049170)
Karin Groten (550927)

December 2018

Table S2. Mature miRNAs conserved to other species when mapped against 72 plant species in miRBase. ...

Additional file 5: of miRNAs involved in the development and differentiation of fertile and sterile flowers in Viburnum macrocephalum f. keteleeri

Weixing Li (1439725)
Zhichong He (4513138)
Li Zhang (8200)
Zhaogeng Lu (4513141)
Jing Xu (1234089)
Jiawen Cui (4513135)
Li Wang (15202)
Biao Jin (279879)

October 2017

Fold-back structures for known miRNA from Viburnum macrocephalum f. keteleeri. Precursor sequences f...

Additional file 2: of A combined small RNA and transcriptome sequencing analysis reveal regulatory roles of miRNAs during anther development of Upland cotton carrying cytoplasmic male sterile Gossypium harknessii (D2) cytoplasm

Bingbing Zhang (414104)
Xuexian Zhang (3860368)
Guoyuan Liu (3860371)
Liping Guo (596697)
Tingxiang Qi (3860374)
Meng Zhang (154027)
Xue Li (285380)
Hailin Wang (67695)
Huini Tang (3860359)
Xiuqin Qiao (3860365)
Wenfeng Pei (843644)
Kashif Shahzad (5868347)
Chaozhu Xing (3860362)
Jinfa Zhang (121196)
Jianyong Wu (190201)

October 2018

Table S2. Information of conserved and non-conserved miRNA family in A, B, and R lines. (XLSX 24Â kb

Additional file 2: of Identification and characterisation of microRNAs and their target genes in phosphate-starved Nicotiana benthamiana by small RNA deep sequencing and 5âRACE analysis

Amanda Huen (6093488)
Julia Bally (204199)
Penelope Smith (3196053)

December 2018

Figure S1. Microsoft PowerPoint Presentation (.pptx). Predicted structures for N. benthamiana pri-mi...

Additional file 2: Table S1. of Small RNA and degradome profiling reveals miRNA regulation in the seed germination of ancient eudicot Nelumbo nucifera

Jihong Hu (384604)
Jing Jin (18601)
Qian Qian (45749)
Keke Huang (703621)
Yi Ding (172783)

August 2016

Detailed information of the known miRNAs identified in sacred lotus during seed germination. Table S...

Additional file 3: Table S2. of Gene silencing pathways found in the green alga Volvox carteri reveal insights into evolution and origins of small RNA systems in plants

Anne Dueck (145404)
Maurits Evers (3151764)
Stefan Henz (3486401)
Katharina Unger (3486404)
Norbert Eichner (3486407)
Rainer Merkl (3117)
Eugene Berezikov (9900)
Julia Engelmann (3440546)
Detlef Weigel (54320)
Stephan Wenzl (3486410)
Gunter Meister (47028)

November 2016

Full list of identified miRNA sequences in this study. The table shows the location and sequence of ...

Additional file 1: Figure S1. of Comprehensive transcriptome analysis reveals distinct regulatory programs during vernalization and floral bud development of orchardgrass (Dactylis glomerata L.)

Guangyan Feng (4436689)
Linkai Huang (546829)
Ji Li (207201)
Jianping Wang (215292)
Lei Xu (78676)
Ling Pan (419743)
Xinxin Zhao (317779)
Xia Wang (36364)
Ting Huang (190932)
Xinquan Zhang (546832)

November 2017

The photo of orchardgrass in different stages. Including stage before vernalization (BV_DON); vernal...

Additional file 2: Figure S1. of Identification of Nicotiana benthamiana microRNAs and their targets using high throughput sequencing and degradome analysis

Ivett Baksa (3484013)
Tibor Nagy (425445)
Endre Barta (5939)
Zoltán Havelda (3484010)
Éva Várallyay (3484007)
Dániel Silhavy (22606)
József Burgyán (222071)
György Szittya (3484016)

December 2015

Quantification of miRNAs by RT-qPCR. Validation of (A) Nb-miRNA167 and (B) Nb-miR482 expression by R...

Additional file 1: of Identification and characterisation of microRNAs and their target genes in phosphate-starved Nicotiana benthamiana by small RNA deep sequencing and 5âRACE analysis

Amanda Huen (6093488)
Julia Bally (204199)
Penelope Smith (3196053)

December 2018

Table S1. Microsoft Excel Worksheet (.xlsx). sRNA deep sequencing read matches to predicted pri-miRN...

Additional file 2: of Integration of small RNAs and transcriptome sequencing uncovers a complex regulatory network during vernalization and heading stages of orchardgrass (Dactylis glomerata L.)

Abstract

Extracted data

Additional file 2: of Integration of small RNAs and transcriptome sequencing uncovers a complex regulatory network during vernalization and heading stages of orchardgrass (Dactylis glomerata L.)

Abstract

Extracted data

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