花生荚果发育过程中的microRNA鉴定与表达分析

doi:10.3724/SP.J.1006.2021.04144

Abstract

Abstract:

“Aerial flower and subterranean fruit” is a distinct feature in peanut (Arachis hypogaea L.). To dissect this character at post-transcription level, small RNA sequencing was performed to identify microRNAs in peanut pod shell and seed during eleven developmental stages. Sequencing analysis identified 212 known microRNAs, including 197 conserved and 15 specific microRNA. In addition, 112 novel microRNAs from 62 novel microRNA precursors were identified. Among the known and new microRNAs, 67 microRNAs and their target genes showed differentially expressed patterns during peanut pod development. Expression trend analysis revealed stage-specific and tissue-specific expression of microRNA and their target genes during pod shell and seed development, implying that microRNAs probably played a role in peanut pod development. To validate expression profiles from small RNA sequencing, quantitative real-time RT-PCR were performed using 28 microRNAs and 30 target genes, revealing consistent expression profiles with sequencing results. The data regarding microRNA and their target genes generated in this study would contribute to understanding the molecular mechanism of plant fruit development under darkness and to crop improvement.

Key words: peanut, pod development, small RNA sequencing, microRNA, target gene

HU Dong-Xiu, LIU Hao, HONG Yan-Bin, LIANG Xuan-Qiang, CHEN Xiao-Ping. Identification and expression analysis of microRNA during peanut (Arachis hypogaea L.) pod development[J].Acta Agronomica Sinica, 2021, 47(4): 613-625.

Figures/Tables 10

Fig. 1

Fig. 2

Fig. 3

Fig. 4

Table S1

Novel and known microRNAs identified in peanut pod (shell and seed) development"

编号 ID	序列 Sequence	长度 Length(nt)	编号 ID	序列 Sequence	长度 Length(nt)
New microRNAs
ahy-miR-s1-3p	UGUAGAAUUUCUGCUCCUUGG	21	ahy-miR-s33-3p	UGUUCAUAGCGGUGCUUGCUG	21
ahy-miR-s1-5p	UAGGAUGGCAGAUAUUCUUUUCA	23	ahy-miR-s33-5p	CAGUGUGGCCGGACUGGAUCAUC	23
ahy-miR-s2-3p	UCCCUUUGGAUGUCGUCGUGC	21	ahy-miR-s34-3p	AUUGCCUACUGAUUGCAUCCCACA	24
ahy-miR-s2-5p	ACUUCUGACAGACGUAGGGAAG	22	ahy-miR-s34-5p	AGGGAUGCUAUCCACAGUCGAUAG	24
ahy-miR-s3-3p	UUCAUGACAGAGUGCUGGCUC	21	ahy-miR-s35-3p	UAACGAGUCGAGCUCGAGCUAGCU	24
ahy-miR-s3-5p	AAGGUCUCUGUCUCUGUGGU	20	ahy-miR-s35-5p	UUUAGGCUCAAGCUUGGCUCACCA	24
ahy-miR-s4-3p	AACCAAAUGAUGAACCAUUCU	21	ahy-miR-s36-3p	UCAGUGUUGCCAGGCGCCUGGG	22
ahy-miR-s4-5p	AAUGUUGAAGAAUUAGGUUGC	21	ahy-miR-s36-5p	CAACGUCUGCCACCACUGAUG	21
ahy-miR-s5-5p	CAACAGCACCCUCCACCUGAG	21	ahy-miR-s37-3p	UUGCGUUGGAGAUGUUGUCCAAUG	24
ahy-miR-s6-5p	AGCGAUUGUUUCUCUUGAUGCAGU	24	ahy-miR-s37-5p	AUUGGACAACAUCUCCAACGUAAC	24
ahy-miR-s7-3p	GAUGAAUGCAGCUCCCUAUAA	21	ahy-miR-s38-3p	UUAAAGUCUGGCCUGACCUAGCCU	24
ahy-miR-s7-5p	AUGGGGCUGGAGUUUGGCUC	20	ahy-miR-s38-5p	GCUACAGGCCAGGCUUAGACC	21
ahy-miR-s8-3p	AGGGGUGAUCUGCCUAGUC	19	ahy-miR-s39-3p	UGAAGGAAGUAGUGGCGACCC	21
ahy-miR-s8-5p	UGAGGCACGCACUCCAGAUGA	21	ahy-miR-s40-3p	UUGAGGACUUGAUAUAUGUCG	21
ahy-miR-s9-3p	CGUGCGCGGUCUUGCACUGCU	21	ahy-miR-s41-3p	GUUAGUAAUUCGAACCACCCUGGU	24
ahy-miR-s9-5p	CAAGUCGUGCACGGCUGGCCU	21	ahy-miR-s41-5p	CACCCUGGUUCGAAUUACGCUUAA	24
ahy-miR-s10-5p	UUGGAAAUGUAUGGCGAGCCU	21	ahy-miR-s42-3p	AGAUAUACUUGUUACGCUUG	20
ahy-miR-s11-3p	UUUGAGAUUGGAUAAUUGCCU	21	ahy-miR-s42-5p	CGGCAGUGAUGAGGCUCUAACAUG	24
ahy-miR-s12-3p	UUGGAAAAGGUCGGUAGAAAG	21	ahy-miR-s43-3p	UGGUAAGAGUUUGAUUAAGUA	21
ahy-miR-s12-5p	UUCACCGACUCUGUUCAGACU	21	ahy-miR-s43-5p	CUUAAUCAAACUCUUAUCAUC	21
ahy-miR-s13-5p	UUCAGAGGCUUGUUUUAUCUC	21	ahy-miR-s44-3p	UACUGAAAUCAGAUCAUCCGAUUA	24
ahy-miR-s14-3p	GCAAACAGGUUCGGUGAAAAC	21	ahy-miR-s44-5p	AUCGGAUGGUCCGAUUUGUGUACC	24
ahy-miR-s14-5p	UUUACCAGAUCCUGUUUGUUC	21	ahy-miR-s45-3p	UCUAACCGAACCGAACCGAAC	21
ahy-miR-s15-3p	UUGUCUCUAAGUGGUGGUUCCA	22	ahy-miR-s45-5p	UCGGUUCGGUUUUCGGUUCUGACC	24
ahy-miR-s15-5p	GAACUGUUCUUCUUAGUUGCGCCU	24	ahy-miR-s46-3p	UGAAGAUUGUUGGGUAGUGUU	21
ahy-miR-s16-3p	CAGCUGUUUGCGGACAAGUCUGGC	24	ahy-miR-s46-5p	AACAUGGUGAAAGGUUUUCAUU	22
ahy-miR-s16-5p	AGACUGUGCGCCGAUAUGCCCGUG	24	ahy-miR-s47-3p	UUGAUAUGGUGUAUUCUGCAGCCU	24
ahy-miR-s17-5p	UUUGGCAGCUCAAUCACUUGG	21	ahy-miR-s47-5p	GUUGUUCAGGUGUAUUAUAUCAGA	24
ahy-miR-s18-3p	CACUUCUUAUGCUUGUUGGAG	21	ahy-miR-s48-3p	AUUUUUAAUCGAUUGUUUUGUGAU	24
ahy-miR-s18-5p	CGCAUGGAUGGAGAAUCUCGCU	22	ahy-miR-s48-5p	GACCAAUCGAUUGAUUUUUG	20
ahy-miR-s19-5p	UCUUGAAAGCUGAGCAUUGGC	21	ahy-miR-s49-3p	CCAACGUUGGAGCAAAAGUUAGA	23
ahy-miR-s20-3p	ACCGGACUUGCGCCCCAGUCGUA	23	ahy-miR-s49-5p	AACUUUUUGGCUAACGUUGGCGCC	24
ahy-miR-s20-5p	UCACAGGCAGCAUAUCAGGUUG	22	ahy-miR-s50-3p	UCCAAGAUGUGGCAUAUCAGUUG	23
ahy-miR-s21-5p	ACGAAACUGUGUGAAGUAAGGCCU	24	ahy-miR-s50-5p	UUUCAUAUGCCGUUCAGAGAGU	22
ahy-miR-s22-3p	UUAAAUCAGUCUGUGGUACCC	21	ahy-miR-s51-3p	UUCUCGGAUUAAUCAGGCUCAGCC	24
ahy-miR-s22-5p	CCGCGGAUUGAUUUUUACCAGA	22	ahy-miR-s51-5p	CUGCCUGUUUAGUUCGCGGACU	22
ahy-miR-s23-3p	UUGAUUGAGUGACUGUAUAGCU	22	ahy-miR-s52-5p	UCAGUGUUUGCUCGCCUCUUC	21
ahy-miR-s23-5p	CUAUGAGUUACUCAAUCAAAC	21	ahy-miR-s53-3p	CUGGAGGCCUUUGAAGGAGAC	21
ahy-miR-s24-3p	UGGCUUGGUCUGACGUGACUCAGC	24	ahy-miR-s53-5p	UCCCUCAAAGGCUUCCAGUA	20
ahy-miR-s24-5p	AUGAGUCGAGUCGUGAGCCAAGCU	24	ahy-miR-s54-3p	AACCGACACGUGAGCUCAUGGCCA	24
ahy-miR-s25-3p	UUUUCCUCUUAAUGGAUCCUCUGU	24	ahy-miR-s54-5p	UUAGCUAUCGGAUGUGUCGAGUCU	24
ahy-miR-s25-5p	AGAGAGGAUCCUUAUCUGGGAACU	24	ahy-miR-s55-3p	UUUGAAACAGAAUCAGUUGGGAUC	24
ahy-miR-s26-3p	UCCUUGGACCUUGGGUGUGAU	21	ahy-miR-s55-5p	UUGGUGACUGAUUUGUGAAUCAAA	24
ahy-miR-s26-5p	AGGACCCAACUCUCUUGAAGGAGA	24	ahy-miR-s56-3p	UUCUGCGCGGUCGCGUCGCUGACG	24
ahy-miR-s27-3p	UGAGGGGGUUGAGGGUGCUGGGGU	24	ahy-miR-s56-5p	UGAGCCAUGAGACCGCGUCACUGC	24
ahy-miR-s27-5p	UUCAGGAUCUCUAUUACUGGC	21	ahy-miR-s57-5p	UUGAGUACCGUCGGAUUUAUCAUC	24
ahy-miR-s28-3p	GUUACUGAUUUACUGGUUCACG	22	ahy-miR-s58-3p	ACUUUAGUGGCUGUUCGCUCACUU	24
ahy-miR-s28-5p	AGAACCGGACCGGUCAAUAAACCA	24	ahy-miR-s58-5p	AUAGAGAGUAGGCCAGUAGAAGCC	24
ahy-miR-s29-3p	UUCUCCCUUGGUAGUGGCGAAGC	23	ahy-miR-s59-3p	UUGUUGUGGCGCCAACGUUUGCCU	24
ahy-miR-s29-5p	CAUCGCCAACUCCAAGGAAG	20	ahy-miR-s59-5p	CAAACGUUGGCGCAAGCUUUUGCU	24
ahy-miR-s30-3p	GGAAGAUUGUUGGUUAGUGUU	21	ahy-miR-s60-3p	AGGAGCUCUGCUGUGUCUUGAUGG	24
ahy-miR-s30-5p	GACUAAUGACAUUCAACCUC	20	ahy-miR-s60-5p	UUCCACGGCAUGACUCUCUAAACC	24
ahy-miR-s31-3p	AAUUUAGACAAUUCAUCCGAU	21	ahy-miR-s61-3p	ACAGUGAGGUUUGUAAGAAAAAGC	24
ahy-miR-s31-5p	AAAUCGGAUGAAUUGUCUAAAUUC	24	ahy-miR-s61-5p	UUUUUCUGUUUAAUUUUGUCU	21
ahy-miR-s32-3p	AAUAAAACAAGUUUUGACUGU	21	ahy-miR-s62-3p	UCAAACGAGGAAAGGCUUAUGG	22
ahy-miR-s32-5p	AGCUCAAAUUUGCCUUAUUUA	21	ahy-miR-s62-5p	AUCUAGCAGCACCUUAGGAUGGCA	24
Known and Conserved microRNAs
ahy-miR156b-5p	UUGACAGAAGAUAGAGAGCAC	21	ahy-miR168d	UCGCUUGGUGCAGGUCGGGAC	21
ahy-miR156b-3p	GCUCUCUAAGCUUCUGUCAUC	21	ahy-miR169f	CAGCCAAGGAUGACUUGCCGG	21
ahy-miR156c	UUGACAGAAGAGAGAGAGCAC	21	ahy-miR169h	UGAGCCAAGGAUGGCUUGCCG	21
ahy-miR156d	UGACAGAAGAAAGUGAGCAC	20	ahy-miR169l	CAGCCAAGAAUGACUUGCCGG	21
ahy-miR156e	UGACAGAAGAGAGUGAGCACA	21	ahy-miR169p	UGAGCCAAGGAUGACUUGCCG	21
ahy-miR156f	UGACAGAAGAGAAUGAGCAC	20	ahy-miR169r	UAGCCAAGGAUGACUUGCCU	20
ahy-miR156g	UGACAGAAGAGAGGGAGCAC	20	ahy-miR169s	AAGCCAAGGAUGACUUGCCGG	21
ahy-miR156h	UGACAGAAGAAAGAGAGCAC	20	ahy-miR171a	GGAUAUUGGUACGGUUCAAUC	21
ahy-miR156i	ACAGAAGAUAGAGAGCACAG	20	ahy-miR171b	UUGAGCCGUGCCAAUAUCACG	21
ahy-miR156j	UGACAGAAGAGGGUGAGCAC	20	ahy-miR171c	UAUUGGUGCGGUUCAAUGAGA	21
ahy-miR156k	UGUGCUCACUCUCUUCUGUCA	21	ahy-miR171d	UUGAGCCGUGCCAAUAUCACU	21
ahy-miR156l	UGUCAGAAGAGAGUGAGCAC	20	ahy-miR171e	UGAGCCGUGCCAAUAUCACAU	21
ahy-miR156m	CGACAGAAGAGAGUGAGCAC	20	ahy-miR171f	UGAUUGAGCCGUGCCAAUAUC	21
ahy-miR156n	UGACAGAGGAGAGUGAGCAC	20	ahy-miR171g	CGAUGUUGGUGAGGUUCAAUC	21
ahy-miR156o	UGACAGAAGAGAGCGAGCAC	20	ahy-miR171h	UGAUUGAGCCGCGUCAAUAUC	21
ahy-miR156q	UGACAGAAGAGAGUGAGCACU	21	ahy-miR171i	CGAGCCGAAUCAAUAUCACUC	21
ahy-miR156s	CUGACAGAAGAUAGAGAGCAC	21	ahy-miR171j	UAUUGGCCUGGUUCACUCAGA	21
ahy-miR157b	GCUCUCUAAGCUUCUGUCAUCA	22	ahy-miR171k	UUGAGCCGCGCCAAUAUCACA	21
ahy-miR157d	UGACAGAAGAUAGAGAGCAC	20	ahy-miR171l	UUGAGCCGCGCCAAUAUCACU	21
ahy-miR159a	UUUGGAUUGAAGGGAGCUCUG	21	ahy-miR171n	UUGAGCCGUGCCAAUAUCACA	21
ahy-miR159b	UUUGGAUUGAAGGGAGCUCUU	21	ahy-miR171p	UUGAGCCGCGUCAAUAUCUUA	21
ahy-miR159c	UUUGGAUUGAAGGGAGCUCCU	21	ahy-miR171t	UUGAGCCGCGUCAAUAUCUCA	21
ahy-miR159d	AGCUGCUUAGCUAUGGAUCCC	21	ahy-miR172a	AGAAUCUUGAUGAUGCUGCAU	21
ahy-miR159e	UUUGGAUUGAAAGGAGCUCUU	21	ahy-miR172b	GGAGCAUCAUCAAGAUUCACA	21
ahy-miR159f	CUUGGAUUGAAGGGAGCUCUA	21	ahy-miR172c	GUAGCAUCAUCAAGAUUCACA	21
ahy-miR159g	UUGGAUUGAAGGGAGCUCCA	20	ahy-miR172d	AGAAUCUUGAUGAUGCUGCAG	21
ahy-miR159h	CUUGGAUUGAAGGGAGCUCU	20	ahy-miR172k	UGAAUCUUGAUGAUGCUGCAU	21
ahy-miR159i	UUUGGACUGAAGGGAGCUCUA	21	ahy-miR390a-5p	AAGCUCAGGAGGGAUAGCGCC	21
ahy-miR159j	AUUGGAGUGAAGGGAGCUCCA	21	ahy-miR390b	CGCUAUCCAUCCUGAGUUUCA	21
ahy-miR159k	UUUGGUUUGAAGGGAGCUCUA	21	ahy-miR390c	CGCUAUCCAUCCUGAGUUUC	20
ahy-miR159l	AUUGGAUUGAAGGGAGCUCCU	21	ahy-miR390d	AAGCUCAGGAGGGAUAGCACC	21
ahy-miR159m	AUUGGAUUGAAGGGAGCUCCA	21	ahy-miR390e	AAGCUCAGGAGGGAUAGCGUC	21
ahy-miR159n	CUUGGAUUGAAGGGAGCUCCC	21	ahy-miR390f	GAGCUCAGGAGGGAUAGCGCC	21
ahy-miR159	UUUGGAUUGAAGGGAGCUCUA	21	ahy-miR390g	CGCUAUCCAUCCUGAGUUCCA	21
ahy-miR319a	UUGGACUGAAGGGAGCUCCC	20	ahy-miR393a	UCCAAAGGGAUCGCAUUGAUCC	22
ahy-miR319b	UUGGACUGAAGGGAGCUCCCU	21	ahy-miR393b	UCCAAAGGGAUCGCAUUGAUCU	22
ahy-miR319c	UUUGGACUGAAGGGAGCUCCU	21	ahy-miR393c	UCCAAAGGGAUCGCAUUGAUC	21
ahy-miR319d	UUGGACUGAAGGGAGCUCCU	20	ahy-miR393d	AUCAUGCUAUCCCUUUGGAUU	21
ahy-miR319e	CUUGGACUGAAGGGAGCUCCC	21	ahy-miR393e	AUCAUGCUAUCUCUUUGGAUU	21
ahy-miR319f	UUGGACUGAAGGGGCCUCUU	20	ahy-miR393k	UUCCAAAGGGAUCGCAUUGAUC	22
ahy-miR319g	UUGGACUGAAGGGAGCUCCCA	21	ahy-miR394	UUGGCAUUCUGUCCACCUCC	20
ahy-miR319h	UUGGACUGAAGGGUGCUCCCU	21	ahy-miR394c	UUGGCAUUCUGUCCACCUCCAU	22
ahy-miR319i	UUGGACUGAAGGGGAGCUCCUUC	23	ahy-miR396a	UUCCACAGCUUUCUUGAACUA	21
ahy-miR319j	CUUGGACUGAAGGGAGCUCCU	21	ahy-miR396b	UUCCACAGCUUUCUUGAACUG	21
ahy-miR319k	UUGGGCUGAAGGGAGCUCCC	20	ahy-miR396c	UUCCACAGCUUUCUUGAACUU	21
ahy-miR319l	UUGGACUGAAGGGAGCUCCUUC	22	ahy-miR396d	UUCCACGGCUUUCUUGAACUU	21
ahy-miR160a	GCGUAUGAGGAGCCAAGCAUA	21	ahy-miR396e	UUCCACAGCUUUCUUGAACUGU	22
ahy-miR160b	UGCCUGGCUCCCUGGAUGCCA	21	ahy-miR396f	UUCCACGGCUUUCUUGAACUG	21
ahy-miR160c	UGCCUGGCUCCCUGUAUGCCA	21	ahy-miR396g	UCUUCCACAGCUUUCUUGAAC	21
ahy-miR160d	UGCCUGGCUCCCUGCAUGCCA	21	ahy-miR396h	UUCCACAGCUUUCUUGAACAG	21
ahy-miR160f	UGCCUGGCUCCCUGUAUGCCG	21	ahy-miR396i	GUUCAAUAAAGCUGUGGGAAG	21
ahy-miR160i	CGCCUGGCUCCCUGUAUGCCA	21	ahy-miR396j	GUUCAAUAAAGCUGUGGGAAA	21
ahy-MIR160-5p	UGCCUGGCUCCCUGAAUGCCA	21	ahy-miR396k	GCUCAAGAAAGCUGUGGGAGA	21
ahy-MIR160-3p	GCAUGAAGGGAGUCACGCAGG	21	ahy-miR396l	AAGAAAGCUGUGGGAGAAUAUGGC	24
ahy-miR162a	UCGAUAAACCUCUGCAUCCAG	21	ahy-miR397a	UCAUUGAGUGCAGCGUUGAUG	21
ahy-miR162b	GGAGGCAGCGGUUCAUCGAUC	21	ahy-miR397b	UCAUUGAGUGCAGCGUUGAUGU	22
ahy-miR162c	UCGAUAAACCUCUGCAUCCGG	21	ahy-miR397c	CCAUUGAGUGCAGCGUUGAUG	21
ahy-miR162d	UCGAUAAGCCUCUGCAUCCAG	21	ahy-miR398a	UGUGUUCUCAGGUCGCCCCUG	21
ahy-miR162e	UGGAGGCAGCGGUUCAUCGAUC	22	ahy-miR398b	UGUGUUCUCAGGUCACCCCUU	21
ahy-miR164a	UGGAGAAGCAGGGCACGUGCA	21	ahy-miR398c	UGUGUUCUCAGGUCGCCCCCG	21
ahy-miR164b	UGGAGAAGCAGGGUACGUGCA	21	ahy-miR398d	UGUGUUCUCAGGUCACCCCUG	21
ahy-miR164c	UGGAGAAGCAGGGCACGUGCG	21	ahy-miR399a	CGCCAAAGGAGAGUUGCCCUG	21
ahy-miR164d	UGGAGAAGCAGGGCACGUGCU	21	ahy-miR399b	UGCCAAAGGAGAGUUGCCCUA	21
ahy-miR164e	UGGAGAAGCAGGGCACGUGAA	21	ahy-miR399c	UGCCAAAGGAGAUUUGCCCUG	21
ahy-miR164h	UGGAGAAGCAGGGCACGUGUG	21	ahy-miR399d	UGCCAAAGGAGAGCUGCCCUG	21
ahy-miR166a-5p	GGAAUGUUGUCUGGCUCGAGG	21	ahy-miR399e	GGGCUUCUCUUUCUUGGCAGG	21
ahy-miR166a-3p	UCGGACCAGGCUUCAUUCCCC	21	ahy-miR399f	UGCCAAAGGAGAUUUGCCCGG	21
ahy-miR166b	UCGGACCAGGCUUCAUUCCCCC	22	ahy-miR399g	CGGGGCAAAUCUCCUUUGGCA	21
ahy-miR166c	UCGGACCAGGCUUCAUUCCCGU	22	ahy-miR399j	UGCCAAAGGAGAGUUGCCCUG	21
ahy-miR166d	UCGGACCAGGCUUCAUUCCCU	21	ahy-miR399r	UGCCAAAGAAGAUUUGCCCCG	21
ahy-miR166e	CUCGGACCAGGCUUCAUUCCC	21	ahy-miR408-3p	AUGCACUGCCUCUUCCCUGGC	21
ahy-miR166f	UCGGACCAGGCUUCAUCCCCC	21	ahy-miR408a	UGCACUGCCUCUUCCCUGGCU	21
ahy-miR166g	UCGGACCAGGCUUCAUUCCC	20	ahy-miR408b	ACUGGGAACAGGCAGAGCAUGA	22
ahy-miR166h-3p	UCUCGGACCAGGCUUCAUUCC	21	ahy-miR408c	UGCACUGCCUCUUCCCUGGCUG	22
ahy-miR166i	UCGGACCAGGCUUCAUUCUC	20	ahy-miR482c	UUUCCAAUUCCACCCAUUCCUA	22
ahy-miR166j-3p	UCGGACCAGGCUUCAUUCCCG	21	ahy-miR482d-3p	UCUUCCCUACACCUCCCAUACC	22
ahy-miR166j-5p	GGAAUGUUGUUUGGCUCGAGG	21	ahy-miR482d-5p	UAUGGGGGGAUUGGGAAGGAAU	22
ahy-miR166k	UCGAACCAGGCUUCAUUCCCC	21	ahy-miR482e	UAUGGGGGGAUUGGGAAGGAA	21
ahy-miR166l	UCCGGACCAGGCUUCAUUCCC	21	ahy-miR530	UGCAUUUGCACCUGCACUUUA	21
ahy-miR166m-5p	GGAAUGUUGGCUGGCUCGAGG	21	ahy-miR828	UCUUGCUCAAAUGAGUAUUCCA	22
ahy-miR166m-3p	UCGGACCAGGCUUCAUUCCUC	21	ahy-miR858	UCUCGUUGUCUGUUCGACCUU	21
ahy-miR166n	UCGGACCAGGCUUCAAUCCCU	21	ahy-miR894	CGUUUCACGUCGGGUUCACC	20
ahy-miR166o	UCGGACCAGGCUUCAUUCCUU	21	ahy-miR1310	AGGCAUCGGGGGCGCAACGCCC	22
ahy-miR166p	UCGGACCAGGCUUCAUUCCUA	21	ahy-miR1507	CCUCGUUCCAUACAUCAUCUAG	22
ahy-miR166q	UCGGACCAGGCUUCAUUCCCUU	22	ahy-miR1511	AACCAGGCUCUGAUACCAUG	20
ahy-miR166r	UCGGAUCAGGCUUCAUUCCUC	21	ahy-miR1515	UCAUUUUUGCGUGCAAUGAUCC	22
ahy-miR166u	UCUCGGACCAGGCUUCAUUC	20	ahy-miR2111	UAAUCUGCAUCCUGAGGUUUA	21
ahy-miR167a	AGAUCAUCUGGCAGUUUCACC	21	ahy-miR2118a	UUGCCGAUUCCACCCAUUCCUA	22
ahy-miR167b	UGAAGCUGCCAGCAUGAUCUA	21	ahy-miR2118b	UUACCGAUUCCACCCAUUCCUA	22
ahy-miR167c	UGAAGCUGCCAGCAUGAUCUGG	22	ahy-miR3711	AGGCCCUCCUUCUAGCGCCA	20
ahy-miR167d	UGAAGCUGCCAGCAUGAUCUGA	22	ahy-miR4995	AGGCAGUGGCUUGGUUAAGGG	21
ahy-miR167e	UGAAGCUGCCAGCAUGAUCUC	21	ahy-miR5139	AAACCUGGCUCUGAUACCA	19
ahy-miR167f	UGAAGCUGCCAGCAUGAUCUG	21	ahy-miR5141a	UUAUCUGUCAGUCGCGUCGGGUCU	24
ahy-miR167j	UGAAGCUGCCAGCAUGAUCUUA	22	ahy-miR5141b	AGACCCGACGCGACUGACAGAUAA	24
ahy-miR167-5p	UGAAGCUGCCAGCAUGAUCUU	21	ahy-miR5538	ACUGAACUCAAUCACUUGCUGC	22
ahy-miR167-3p	AGAUCAUGUGGCAGUUUCACC	21	ahy-miR6173a	AGCCGUAAACGAUGGAUACU	20
ahy-miR168a	UCGCUUGGUGCAGGUCGGGAA	21	ahy-miR6173b	AGUAUCCAUCGUUUACGGCU	20
ahy-miR168b	UCGCUUGGUGCAGGUCGAGAA	21	ahy-miR6478	CCGACCUUAGCUCAGUUGGUG	21
ahy-miR168c	CCCGCCUUGCAUCAACUGAAU	21
Known and Peanut-Specific
ahy-miR3508	UAGAGGGUCCCCAUGUUCUCA	21	ahy-miR3514-3p	UCACCGUUAAUACAGAAUCCUU	22
ahy-miR3509-5p	AUACUUGAGAGCCGUUAGAUGA	22	ahy-miR3515	AAUGUAGAAAAUGAACGGUAU	21
ahy-miR3510	UUAUACCAUCUUGCGAGACUGA	22	ahy-miR3516	GCUGGGUGAUAUUGACAGAAG	21
ahy-miR3511-3p	UGUUACUAUGGCAUCUGGUAA	21	ahy-miR3517	CUGACCACUGUGAUCCCGGAA	21
ahy-miR3511-5p	GCCAGGGCCAUGAAUGCAGA	20	ahy-miR3518	UGACCUUUGGGGAUAUUCGUG	21
ahy-miR3512	CGCAAAUGAUGACAAAUAGA	20	ahy-miR3519	UCAAUCAAUGACAGCAUUUCA	21
ahy-miR3513-5p	UUAAUUUCUGAGUUUGUCAUC	21	ahy-miR3520-3p	AAGGGAGACGUUUGAAUUAUC	21
ahy-miR3513-3p	UUGAUAAGAUAGAAAUUGUAU	21

Table S1

Fig. 5

Fig. 6

Fig. 7

Fig. 8

Fig. 9

References 31

[1]	Rogers K, Chen X. Biogenesis, turnover, and mode of action of plant microRNAs. Plant Cell, 2013,25:2383-2399.
[2]	Chen X. A microRNA as a translational repressor of APETALA2 in Arabidopsis flower development. Science, 2004,303:2022-2025. doi: 10.1126/science.1088060 pmid: 12893888
[3]	Dong Z, Han M H, Fedoroff N. The RNA-binding proteins HYL1 and SE promote accurate in vitro processing of pri-miRNA by DCL1. Proc Natl Acad Sci USA, 2008,105:9970-9975. pmid: 18632569
[4]	Yu B, Yang Z Y, Li J J, Minakhina S, Yang M C, Padgett R W, Steward R, Chen X M. Methylation as a crucial step in plant microRNA biogenesis. Science, 2005,307:932-935. doi: 10.1126/science.1107130 pmid: 15705854
[5]	Park W, Li J J, Song R T, Messing J, Chen X M. CARPEL FACTORY, a dicer homolog, and HEN1, a novel protein, act in microRNA metabolism in Arabidopsis thaliana. Curr Biol, 2002,12:1484-1495. pmid: 12225663
[6]	Xie M, Zhang S X, Yu B. microRNA biogenesis, degradation and activity in plants. Cell Mol Life Sci, 2015,72:87-99. doi: 10.1007/s00018-014-1728-7 pmid: 25209320
[7]	邢利娟, 刘悦萍, 王磊, 徐妙云. miRNA参与植物胚和胚乳发育调控的研究进展. 生物技术进展, 2020,10(2):109-116.
	Xing L J, Liu Y P, Wang L, Xu M Y. Research progress of miRNA involved in regulation of plant embryo and endosperm development. Curr Biotechnol, 2020,10(2):109-116 (in Chinese with English abstract).
[8]	秦耀旭, 张关元, 刘司奇, 刘洋, 许志茹. 植物重金属胁迫相关miRNA的研究进展. 分子植物育种, 2019,17:2855-2861.
	Qin Y X, Zhang G Y, Liu S Q, Liu Y, Xu Z R. Research progress of miRNA related to heavy metal stress in plants. Mol Plant Breed, 2019,17:2855-2861 (in Chinese with English abstract).
[9]	郁佳雯, 韩荣鹏, 仇婷, 李宗芸, 潘沈元, 董婷婷. microRNA在植物生长发育中的研究进展. 分子植物育种, 2020,18:1496-1504.
	Yu J W, Han R P, Qiu T, Li Z Y, Pan S Y, Dong T T. Research progress on microRNA in plant growth and development. Mol Plant Breed, 2020,18:1496-1504 (in Chinese with English abstract).
[10]	Long R C, Li M N, Li X, Gao Y L, Zhang T J, Sun Y, Kang J M, Wang T H, Cong L L, Yang Q C. A novel miRNA sponge form efficiently inhibits the activity of miR393 and enhances the salt tolerance and ABA insensitivity in Arabidopsis thaliana. Plant Mol Biol Rep, 2017,35:409-415.
[11]	李科学, 曲德杰, 黄慧梅, 曹金山, 樊仔慧, 李国纪, 王幼宁. miRNA调控大豆根系结瘤及共生固氮的分子机制研究进展. 植物生理学报, 2019,55:1587-1594.
	Li K X, Qu D J, Huang H M, Cao J S, Fan Z H, Li G J, Wang Y N. Research progress on miRNA-mediated molecular mechanisms of nodulation and symbiotic nitrogen fixation in soybean. J Plant Physiol, 2019,55:1587-1594 (in Chinese with English abstract).
[12]	Wang T Y, Ping X K, Cao Y R, Jian H J, Gao Y M, Wang J, Tan Y C, Xu X F, Lu K, Li J N, Liu L Z. Genome-wide exploration and characterization of miR172/euAP2 genes in Brassica napus L. for likely role in flower organ development. BMC Plant Biol, 2019,19:336. doi: 10.1186/s12870-019-1936-2 pmid: 31370790
[13]	Jiao X M, Wang H C, Yan J J, Kong X Y, Liu Y W, Chu J F, Chen X Y, Fang R X, Yan Y S. Promotion of BR biosynthesis by miR444 is required for ammonium-triggered inhibition of root growth. Plant Physiol, 2020,182:1454-1466. pmid: 31871071
[14]	Guo G H, Liu X Y, Sun F L, Cao J, Huo N, Wuda B, Xin M M, Hu Z R, Du J K, Xia R, Rossi V, Peng H R, Ni Z F, Sun Q X, Yao Y Y. Wheat miR9678 affects seed germination by generating phased siRNAs and modulating abscisic acid/gibberellin signaling. Plant Cell, 2018,30:796-814. pmid: 29567662
[15]	José Ripoll J, Bailey L J, Mai Q A, Wu S L, Hon C T, Chapman E J, Ditta G S, Estelle M. Yanofsky M F. microRNA regulation of fruit growth. Nat Plants, 2015,1:15036. doi: 10.1038/nplants.2015.36 pmid: 27247036
[16]	Todesco M, Rubio-Somoza I, Paz-Ares J, Weigel D. A collection of target mimics for comprehensive analysis of microRNA function in Arabidopsis thaliana. PLoS Genet, 2010,6:e1001031. doi: 10.1371/journal.pgen.1001031 pmid: 20661442
[17]	Lu Y Z, Feng Z, Meng Y L, Bian L Y, Xie H, Mysore K S, Liang J S. SLENDER RICE1 and Oryza sativa INDETERMINATE DOMAIN2 regulating osmiR396 are involved in stem elongation. Plant Physiol, 2020,182:2213-2227. pmid: 31953375
[18]	Zhang J P, Yu Y, Feng Y Z, Zhou Y F, Zhang F, Yang Y W, Lei M Q, Zhang Y C, Chen Y Q. MiR408 regulates grain yield and photosynthesis via a phytocyanin protein. Plant Physiol, 2017,175:1175-1185. doi: 10.1104/pp.17.01169 pmid: 28904074
[19]	Zhao C, Li T, Zhao Y, Zhang B, Li A, Zhao S, Hou L, Xia H, Fan S, Qiu J, Li P, Zhang Y, Guo B, Wang X. Integrated small RNA and mRNA expression profiles reveal miRNAs and their target genes in response to Aspergillus flavus growth in peanut seeds. BMC Plant Biol, 2020,20:215. pmid: 32404101
[20]	Ma X L, Zhang X G, Zhao K K, Li F P, Li K, Ning L L, He J L, Xin Z Y, Yin D M. Small RNA and degradome deep sequencing reveals the roles of microRNAs in seed expansion in peanut ( Arachis hypogaea L.). Front Plant Sci, 2018,9:349. doi: 10.3389/fpls.2018.00349 pmid: 29662498
[21]	Chen H, Yang Q, Chen K, Zhao S S, Zhang C, Pan R L, Cai T C, Deng Y, Wang X J, Chen Y T, Chu W T, Xie W P, Zhuang W J. Integrated microRNA and transcriptome profiling reveals a miRNA-mediated regulatory network of embryo abortion under calcium deficiency in peanut ( Arachis hypogaea L.). BMC Genomics, 2019,20:392. pmid: 31113378
[22]	Gao C, Wang P F, Zhao S Z, Zhao C Z, Xia H, Hou L, Ju Z, Zhang Y, Li C S, Wang X J. Small RNA profiling and degradome analysis reveal regulation of microRNA in peanut embryogenesis and early pod development. BMC Genomics, 2017,18:220. pmid: 28253861
[23]	Chen C J, Chen H, Zhang Y, Thomas H R, Frank M H, He Y H, Xia R. Tbtools: an integrative toolkit developed for interactive analyses of big biological data. Mol Plant, 2020,S1674-2052:30187-30188.
[24]	Zhao Y T, Wang M, Fu S X, Yang W C, Qi C K, Wang X J, X J. Small RNA profiling in two Brassica napus cultivars identifies microRNAs with oil production-and development-correlated expression and new small RNA classes. Plant Physiol, 2012,158:813-823. doi: 10.1104/pp.111.187666 pmid: 22138974
[25]	Nodine M D, Bartel D P. MicroRNAs prevent precocious gene expression and enable pattern formation during plant embryogenesis. Genes Dev, 2010,24:2678-2692. pmid: 21123653
[26]	Palatnik J F, Allen E, Wu X, Schommer C, Schwab R, Carrington J C, Weigel D. Control of leaf morphogenesis by microRNAs. Nature, 2003,425:257-263. pmid: 12931144
[27]	Wang S K, Wu K, Yuan Q B, Liu X Y, Liu Z B, Lin X Y, Zeng R Z, Zhu H T, Dong G J, Qian Q, Zhang G Q, Fu X D. Control of grain size, shape and quality by OsSPL16 in rice. Nat Genet, 2012,44:950-954. doi: 10.1038/ng.2327 pmid: 22729225
[28]	Pignocchi C, Kiddle G, Hernández I, Foster S J, Asensi A, Taybi T, Barnes J, Foyer C H. Ascorbate oxidase-dependent changes in the redox state of the apoplast modulate gene transcript accumulation leading to modified hormone signaling and orchestration of defense processes in tobacco. Plant Physiol, 2006,141:423-435. doi: 10.1104/pp.106.078469 pmid: 16603663
[29]	Potters G, Horemans N, Caubergs R J, Asard H. Ascorbate and dehydroascorbate influence cell cycle progression in a tobacco cell suspension. Plant Physiol, 2000,124:17-20. pmid: 10982417
[30]	Yang J H, Han S J, Yoon E K, Lee W S. Evidence of an auxin signal pathway, microRNA167-ARF8-GH3, and its response to exogenous auxin in cultured rice cells. Nucleic Acids Res, 2006,34:1892-1899. doi: 10.1093/nar/gkl118 pmid: 16598073
[31]	Jones-Rhoades M W, Bartel D P. Computational identification of plant microRNAs and their targets, including a stress induced miRNA. Mol Cell, 2004,14:787-799. doi: 10.1016/j.molcel.2004.05.027 pmid: 15200956

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Identification and expression analysis of microRNA during peanut (Arachis hypogaea L.) pod development

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