Expression analysis of rooting-related genes between different clones of Eucalyptus urophylla in tissue culture

LIAO Huanqin, YANG Huixiao, XU Fang, PAN Wen, ZHANG Weihua, CHEN Xinyu, ZHU Baozhu, XU Bin, WANG Yuxia, YANG Xiaohui

JOURNAL OF NANJING FORESTRY UNIVERSITY ›› 2023, Vol. 47 ›› Issue (4) : 114-122.

PDF(5957 KB)
南京林业大学学报（自然科学版）
PDF(5957 KB)
JOURNAL OF NANJING FORESTRY UNIVERSITY ›› 2023, Vol. 47 ›› Issue (4) : 114-122. DOI: 10.12302/j.issn.1000-2006.202108006

Expression analysis of rooting-related genes between different clones of Eucalyptus urophylla in tissue culture

Author information +
History +

Abstract

【Objective】This study was designed to examine differences in gene expression between Eucalyptus urophylla clones cultivated on the same medium and at different growth periods in order to provide genetic information for the analyses of differences in root development.【Method】 We used two E. urophylla clones grown in the same rooting medium with contrasting differences in rooting initiation but with the same generation of subcultures. We performed transcriptome sequencing analysis using 2 mm length stem tissue from the base of each clone on 0, 1, 4 and 6 d when apparent morphological differences occurred in clone base following fast rooting initiation. We further identified the differentially expressed genes (DEGs) that caused rooting differences between clones using gene differential expression analysis, cluster analysis, GO analysis and KEGG analysis.【Result】A total of 20 287 DEGs were obtained, which were significantly grouped into four subclusters. Among them, the number of DEGs with an increasing expression pattern in fast rooting initiation clone was much higher than that in slow rooting initiation clone, and the number of DEGs with less expression change between 1 and 0 d in slow rooting initiation clone were much higher than those in fast rooting initiation clone. After being transferred to IBA medium, the GO analysis showed that DEGs of subcluster 17 were significantly enriched in cell cycle-related pathways in the fast rooting initiation clone, while significantly enriched in the stress resistance-related pathways in the slow rooting initiation clone. The KEGG analysis showed that DEGs in the slow rooting initiation clone were enriched in more biological pathways, while DEGs involved in ribosome were only significantly enriched in the fast rooting initiation clone. DEGs involved in glycolysis, gluconeogenesis, secondary metabolites biosynthesis and oxidative phosphorylation were significantly enriched in the slow rooting initiation clone. A total of 202 DEGs were significantly enriched in the plant hormone signal transduction pathway. There were significant differences between the two clones on the expression levels of DEGs encoding AUX/IAA in the auxin signal transduction pathway, DEGs encoding CRE1 in the cytokinin signal transduction pathway and transcription factor in the gibberellin signal transduction pathway.【Conclusion】The two clones of E. urophylla differ in gene expression during root development after they were transferred to the rooting medium. Expression of the same DEGs varies between the slow rooting initiation clone and the fast rooting initiation clone, resulting in functional variations between the clones including the production of auxin, gibberellin and cytokinin.

Key words

Eucalyptus urophylla / tissue culture / rooting / transcriptome sequencing analysis / KEGG analysis

Cite this article

EndNote

Ris (Procite)

Bibtex

Download Citations
LIAO Huanqin , YANG Huixiao , XU Fang , et al . Expression analysis of rooting-related genes between different clones of Eucalyptus urophylla in tissue culture[J]. JOURNAL OF NANJING FORESTRY UNIVERSITY. 2023, 47(4): 114-122 https://doi.org/10.12302/j.issn.1000-2006.202108006

References

List( Publishing order | Descend order by publishing year | Descend order by cited within ) Chart analysis
[1]
STEFFENS B, RASMUSSEN A. The physiology of adventitious roots[J]. Plant Physiol, 2016, 170(2):603-617. DOI: 10.1104/pp.15.01360.
Cited in this article [1]
[2]
靳景春, 胡勐鸿, 张宋智, 等. 欧洲云杉扦插生根特性的研究[J]. 西北林学院学报, 2009, 24(5):70-73,105.
JIN J C, HU M H, ZHANG S Z, et al. Rooting capability of twigs of Picea abies[J]. J Northwest For Univ, 2009, 24(5):70-73,105.
Cited in this article [1]
[3]
欧阳芳群, 付国赞, 王军辉, 等. 欧洲云杉扦插生根进程中内源激素和多酚类物质变化[J]. 林业科学, 2015, 51(3):155-162.
OUYANG F Q, FU G Z, WANG J H, et al. Qualitative analysis of endogenesis hormone and polyphenol during rooting of cuttings in Norway spruce (Picea abies)[J]. Sci Silvae Sin, 2015, 51(3):155-162.DOI: 10.11707/j.1001-7488.20150320.
Cited in this article [1]
[4]
王书胜, 单文, 张乐华, 等. 基质和IBA浓度对云锦杜鹃扦插生根的影响[J]. 林业科学, 2015, 51(9):165-172.
WANG S S, SHAN W, ZHANG L H, et al. Effects of media and IBA concentrations on rooting of Rhododendron fortunei for cutting propagation[J]. Sci Silvae Sin, 2015, 51(9):165-172.DOI: 10.11707/j.1001-7488.20150921.
Cited in this article [1]
[5]
韩超, 徐晓立. 3种桉树组培苗不定根发生发育过程的解剖学观察[J]. 西北植物学报, 2016, 36(8):1594-1599.
HAN C, XU X L. Research of anatomy observation on adventitious rooting genesis and development of three rooting culture seedlings of Eucalyptus[J]. Acta Bot Boreali Occidentalia Sin, 2016, 36(8):1594-1599.DOI: 10.7606/j.issn.1000-4025.2016.08.1594.
Cited in this article [1]
[6]
王荣. 苹果砧木茎源根系发生中次生代谢、内源激素和转录组差异分析[D]. 泰安: 山东农业大学, 2016.
WANG R. Secondary metabolism,endogenous hormone and transcriptome analysis of apple stock cutting root system[D]. Tai'an: Shandong Agricultural University, 2016.
Cited in this article [1]
[7]
杜常健, 孙佳成, 陈炜, 等. 侧柏古树实生树和嫁接树的扦插生理和解剖特性比较[J]. 林业科学, 2019, 55(9):41-49.
DU C J, SUN J C, CHEN W, et al. Comparison of physiological and anatomical characteristics between seedlings and graftings derived from old Platycladus orientalis[J]. Sci Silvae Sin, 2019, 55(9):41-49.DOI: 10.11707/j.1001-7488.20190905.
Cited in this article [1]
[8]
王胤, 姚瑞玲. 继代培养中马尾松生根能力及其与内源激素含量的相关分析[J]. 林业科学, 2020, 56(8):38-46.
WANG Y, YAO R L. Rooting capacity of Pinus massoniana and the correlations endohormones levels during subcultur[J]. Sci Silvae Sin, 2020, 56(8):38-46.DOI: 10.11707/j.1001-7488.20200805.
Cited in this article [1]
[9]
WANG Z Q, HUA J F, YIN Y L, et al. An integrated transcriptome and proteome analysis reveals putative regulators of adventitious root formation in Taxodium ‘Zhongshanshan’[J]. Int J Mol Sci, 2019, 20(5):1225.DOI: 10.3390/ijms20051225.
Cited in this article [3]
[10]
NEGISHI N, OISHI M, KAWAOKA A. Chemical screening for promotion of adventitious root formation in Eucalyptus globulus[J]. BMC Proc, 2011, 5(suppl 7):P139.DOI: 10.1186/1753-6561-5-s7-p139.
Cited in this article [1]
[11]
ABARCA D, PIZARRO A, HERNÁNDEZ I, et al. The GRAS gene family in pine:transcript expression patterns associated with the maturation-related decline of competence to form adventitious roots[J]. BMC Plant Biol, 2014, 14:354.DOI: 10.1186/s12870-014-0354-8.
Cited in this article [1]
[12]
LEGUÉ V, RIGAL A, BHALERAO R P. Adventitious root formation in tree species:involvement of transcription factors[J]. Physiol Plant, 2014, 151(2):192-198.DOI: 10.1111/ppl.12197.
Cited in this article [1]
[13]
罗建中. 多效唑矮化桉树无性系的效果研究[J]. 广东林业科技, 2000, 16(4):6-9.
LUO J Z. A study on the dwarfing effect of paclobutrazor on eucalypt clones[J]. For Sci Technol, 2000, 16(4):6-9.
Cited in this article [1]
[14]
BAI T H, DONG Z D, ZHENG X B, et al. Auxin and its interaction with ethylene control adventitious root formation and development in apple rootstock[J]. Front Plant Sci, 2020, 11:574881.DOI: 10.3389/fpls.2020.574881.
Cited in this article [2]
[15]
DE KLERK G J, ARNHOLDT-SCHMITT B, LIEBEREI R, et al. Regeneration of roots,shoots and embryos:physiological,biochemical and molecular aspects[J]. Biol Plant, 1997, 39(1):53-66.DOI: 10.1023/A:1000304922507.
Cited in this article [1]
[16]
RIGAL A, YORDANOV Y S, PERRONE I, et al. The AINTEGUMENTA LIKE1 homeotic transcription factor PtAIL1 controls the formation of adventitious root primordia in poplar[J]. Plant Physiol, 2012, 160(4):1996-2006.DOI: 10.1104/pp.112.204453.
Cited in this article [1]
[17]
DA COSTA C T, DE ALMEIDA M R, RUEDELL C M, et al. When stress and development go hand in hand: main hormonal controls of adventitious rooting in cuttings[J]. Front Plant Sci, 2013, 4:133.DOI: 10.3389/fpls.2013.00133.
Cited in this article [1]
[18]
BELLINI C, PACURAR D I, PERRONE I. Adventitious roots and lateral roots:similarities and differences[J]. Annu Rev Plant Biol, 2014, 65(1):639-66.DOI: 10.1146/annurev-arplant-050213-035645.
Cited in this article [1]
[19]
LI A M, LAKSHMANAN P, HE W Z, et al. Transcriptome profiling provides molecular insights into auxin-induced adventitious root formation in sugarcane (Saccharum spp.interspecific hybrids) microshoots[J]. Plants (Basel), 2020, 9(8):931.DOI: 10.3390/plants9080931.
Cited in this article [1]
[20]
POP T I, PAMFIL D, BELLINI C. Auxin control in the formation of adventitious roots[J]. Not Bot Horti Agrobot Cluj Napoca, 2011, 39(1):307-316.DOI: 10.15835/nbha3916101.
Cited in this article [1]
[21]
ZAMAN M, KUREPIN L V, CATTO W, et al. Evaluating the use of plant hormones and biostimulators in forage pastures to enhance shoot dry biomass production by perennial ryegrass (Lolium perenne L.)[J]. J Sci Food Agric, 2016, 96(3):715-726.DOI: 10.1002/jsfa.7238.
Cited in this article [1]
[22]
YANG Y D, HAMMES U Z, TAYLOR C G, et al. High-affinity auxin transport by the AUX1 influx carrier protein[J]. Curr Biol, 2006, 16(11):1123-1127. DOI: 10.1016/j.cub.2006.04.029.
Cited in this article [1]
[23]
DE ALMEIDA M R, DE BASTIANI D, GAETA M L, et al. Comparative transcriptional analysis provides new insights into the molecular basis of adventitious rooting recalcitrance in Eucalyptus[J]. Plant Sci, 2015, 239:155-165.DOI: 10.1016/j.plantsci.2015.07.022.
Cited in this article [2]
[24]
LAPLAZE L, BENKOVA E, CASIMIRO I, et al. Cytokinins act directly on lateral root founder cells to inhibit root initiation[J]. Plant Cell, 2008, 19(12):3889-3900.DOI: 10.1105/tpc.107.055863.
Cited in this article [1]
[25]
RAMÍREZ-CARVAJAL G A, MORSE A M, DERVINIS C, et al. The cytokinin type-B response regulator PtRR13 is a negative regulator of adventitious root development in Populus[J]. Plant Physiol, 2009, 150(2):759-771.DOI: 10.1104/pp.109.137505.
Cited in this article [1]
PDF(5957 KB)

Accesses

Citation

Detail
Sections
Recommended
The full text is translated into English by AI, aiming to facilitate reading and comprehension. The core content is subject to the explanation in Chinese.

Author

Reader

Reviewer

www.nldxb.njfu.edu.cn

Edited ＆ Published by Editorial Department of Nanjing Forestry University(Natural Sciences Edition)
Address： No.159 Longpan Road,Nanjing 210037 Jiangsu,P.R.China
E-mail ：xuebao@njfu.edu.cn , xuebao@njfu.com.cn
Telephone +86-25-85428247,85427076
Distributed by China International Book Trading Corporation P.O. Box 399, Beijing ,P.R. China

/

〈 〉