Evidence map›Paper›PMID 26313687›Full record

ArticlePloS one2015

Characterization of the Transcriptome of the Xerophyte Ammopiptanthus mongolicus Leaves under Drought Stress by 454 Pyrosequencing.

Tao Pang, Lili Guo, Donghwan Shim, Nathaniel Cannon, Sha Tang, Jinhuan Chen, Xinli Xia, Weilun Yin, John E Carlson

Erratum issuedAbstract read
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In one paragraph

Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

6 citing papers in PubMed.

  1. Article
  2. Article
  3. Tolerance strategies revealed in tree peony (Applications in plant sciences · 2018
    Article
  4. Article
  5. Article
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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

9 authors.

Tao PangNational Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Key Laboratory for Silviculture and Conservation, Beijing Forestry University, Beijing, People's Republic of China.
Lili GuoNational Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Key Laboratory for Silviculture and Conservation, Beijing Forestry University, Beijing, People's Republic of China; College of Agricultural, Henan University of Science and Technology, Luoyang, People's Republic of China.
Donghwan ShimThe Schatz Center for Tree Molecular Genetics, Department Ecosystem Science and Management, Pennsylvania State University, University Park, Pennsylvania, United States of America; Department of Forest Genetic Resources, Korea Forest Research Institute, Suwon 441-350, Korea.
Nathaniel CannonThe Schatz Center for Tree Molecular Genetics, Department Ecosystem Science and Management, Pennsylvania State University, University Park, Pennsylvania, United States of America.
Sha TangNational Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Key Laboratory for Silviculture and Conservation, Beijing Forestry University, Beijing, People's Republic of China.
Jinhuan ChenNational Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Key Laboratory for Silviculture and Conservation, Beijing Forestry University, Beijing, People's Republic of China.
Xinli XiaNational Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Key Laboratory for Silviculture and Conservation, Beijing Forestry University, Beijing, People's Republic of China.
Weilun YinNational Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Key Laboratory for Silviculture and Conservation, Beijing Forestry University, Beijing, People's Republic of China.
John E CarlsonThe Schatz Center for Tree Molecular Genetics, Department Ecosystem Science and Management, Pennsylvania State University, University Park, Pennsylvania, United States of America.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundAmmopiptanthus mongolicus (Maxim. Ex Kom.) Cheng f., an endangered ancient legume species, endemic to the Gobi desert in north-western China. As the only evergreen broadleaf shrub in this area, A. mongolicus plays an important role in the region's ecological-environmental stability. Despite the strong potential of A. mongolicus in providing new insights on drought tolerance, sequence information on the species in public databases remains scarce. To both learn about the role of gene expression in drought stress tolerance in A. mongolicus and to expand genomic resources for the species, transcriptome sequencing of stress-treated A. mongolicus plants was performed.

resultsUsing 454 pyrosequencing technology, 8,480 and 7,474 contigs were generated after de novo assembly of RNA sequences from leaves of untreated and drought-treated plants, respectively. After clustering using TGICL and CAP3 programs, a combined assembly of all reads produced a total of 11,357 putative unique transcripts (PUTs). Functional annotation and classification of the transcripts were conducted by aligning the 11,357 PUTs against the public protein databases and nucleotide database (Nt). Between control and drought-treated plants, 1,620 differentially expressed genes (DEGs) were identified, of which 1,106 were up-regulated and 514 were down-regulated. The differential expression of twenty candidate genes in metabolic pathways and transcription factors families related to stress-response were confirmed by quantitative real-time PCR. Representatives of several large gene families, such as WRKY and P5CS, were identified and verified in A. mongolicus for the first time.

conclusionsThe additional transcriptome resources, gene expression profiles, functional annotations, and candidate genes provide a more comprehensive understanding of the stress response pathways in xeric-adapted plant species such as A. mongolicus.

Indexed as

FabaceaePlant LeavesRNA, PlantChinaDatabases, GeneticGene Expression Regulation, PlantHigh-Throughput Nucleotide SequencingSoftwareStress, PhysiologicalTranscriptomeRNA, Plant

Identifiers

PMID26313687
PMCPMC4552034

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.