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genome sequencing, assembly, annotation, and transcriptome  (Novogene)

 
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    Novogene genome sequencing, assembly, annotation, and transcriptome
    Genome Sequencing, Assembly, Annotation, And Transcriptome, supplied by Novogene, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/annotated+transcriptome+assembly/genome+assembly/pmc11568676-100-5-9
    Average 90 stars, based on 1 article reviews
    genome sequencing, assembly, annotation, and transcriptome - by Bioz Stars, 2026-11
    90/100 stars

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    Related Articles

    Sequencing:

    Article Title: Genome and transcriptome analysis of the lignite-degrading Trichoderma cf. simile WF8 strain highlights potential degradation mechanisms
    Article Snippet: The biodegradation of lignite (brown coal) by microorganisms has the potential for bioremediation of contaminated mining sites and to generate alternative ways to valorize lignite, such as by producing humic acids or building block chemicals.. Previously, a lignite-degrading strain of Trichoderma was isolated, but the genomic and transcriptomic basis of its lignite-degrading ability remained unknown.. Here we report that the sequenced genome of the T. cf. simile WF8 strain encoded for enzymes with roles in the degradation of lignite, and potentially tolerance to lignite-breakdown products.

    Article Title: Integrated multi-approaches reveal unique metabolic mechanisms of Vestimentifera to adapt to deep sea
    Article Snippet: .. Genome sequencing, assembly, annotation, and transcriptome were performed in Novogene Bioinformatics Institute (Beijing, China). .. Both the Illumina HiSeq platform and the PacBio Sequel were used for the sequencing.

    Article Title: Identification of a receptor for the sex pheromone of the vine mealybug, Planococcus ficus
    Article Snippet: .. Purified genomic DNA was sent to Novogene, Inc., for sample integrity analysis, sequencing, and genome assembly. .. Briefly, a 350 bp insert library was prepared from the DNA sample and sequenced on Illumina's Novaseq platform (PE150), after which low-quality reads and adapter sequences were removed from 52,804,232 raw reads prior to assembly into a preliminary genome using SOAPdenovo software ( ).

    Article Title: Complete genome sequence provides information on quorum sensing related spoilage and virulence of Aeromonas salmonicida GMT3 isolated from spoiled sturgeon.
    Article Snippet: Foodborne bacteria can pose a threat to the public health due to their spoilage and virulence potential, which can be regulated by quorum sensing (QS) system.. In the study, we isolated a spoilage bacteria strain Aeromonas salmonicida GMT3 from refrigerated sturgeon.. The complete genome of A. salmonicida GMT3 was sequenced, and the QS related genes were assigned.

    Article Title: Genomic diversity of Capillovirus uniheveae (Betaflexiviridae) infecting Hevea brasiliensis Muell. Arg. in Hainan, China.
    Article Snippet: Ribosomal RNA was removed using the Illumina Ribo-Zero rRNA Removal Kit (Plant Leaf ). cDNA was synthesized using random hexamer primers and the RevertAid First Strand cDNA Synthesis Kit (Thermo Fisher Scientific), following the manufacturer’s instructions. .. Sequencing and de novo assembly were conducted at Novogene Co. (Beijing, China). ..

    Article Title: A Novel Method to Profile Transcripts Encoding SH2 Domains in the Patiria miniata Mature Egg Transcriptome.
    Article Snippet: .. Library preparation, sequencing, and assembly were performed by Novogene Co. (Sacramento, CA, USA). .. For library preparation, the NEBNext® UltraTM RNA Library Prep Kit for Illumina ® (New England Biolabs, Ipswich, MA, USA) was used to create sequencing libraries from 1.5 μg of total RNA per sample following the manufacturer’s protocol, and index codes were added to the sequences in each sample.

    RNA sequencing:

    Article Title: Genome and transcriptome analysis of the lignite-degrading Trichoderma cf. simile WF8 strain highlights potential degradation mechanisms
    Article Snippet: The biodegradation of lignite (brown coal) by microorganisms has the potential for bioremediation of contaminated mining sites and to generate alternative ways to valorize lignite, such as by producing humic acids or building block chemicals.. Previously, a lignite-degrading strain of Trichoderma was isolated, but the genomic and transcriptomic basis of its lignite-degrading ability remained unknown.. Here we report that the sequenced genome of the T. cf. simile WF8 strain encoded for enzymes with roles in the degradation of lignite, and potentially tolerance to lignite-breakdown products.

    other:

    Article Title: Genomic and Transcriptomic Analyses Identify Two Key Glycosyltransferase Genes alhH and alhK of Exopolysaccharide Biosynthesis in Pantoea alhagi NX-11.
    Article Snippet: A single colony was then selected and transferred into LB liquid medium, followed by Microorganisms 2024, 12, 2016 3 of 14 incubation at 37 ◦C and 200 rpm for 24 h. DNA was extracted from 5 mL of bacteria, and the genome of P. alhagi NX-11 was sequenced and assembled by Novogene Co., Ltd. (Beijing, China).

    Article Title: Unraveling the genomic secrets of Tritonibacter mobilis AK171: a plant growth-promoting bacterium isolated from Avicennia marina
    Article Snippet: Genomic sequencing and assembly were performed at Novogene Bioinformatics Technology Co., Ltd. (Singapore).

    Purification:

    Article Title: Identification of a receptor for the sex pheromone of the vine mealybug, Planococcus ficus
    Article Snippet: .. Purified genomic DNA was sent to Novogene, Inc., for sample integrity analysis, sequencing, and genome assembly. .. Briefly, a 350 bp insert library was prepared from the DNA sample and sequenced on Illumina's Novaseq platform (PE150), after which low-quality reads and adapter sequences were removed from 52,804,232 raw reads prior to assembly into a preliminary genome using SOAPdenovo software ( ).

    Cell Culture:

    Article Title: Complete genome sequence provides information on quorum sensing related spoilage and virulence of Aeromonas salmonicida GMT3 isolated from spoiled sturgeon.
    Article Snippet: Foodborne bacteria can pose a threat to the public health due to their spoilage and virulence potential, which can be regulated by quorum sensing (QS) system.. In the study, we isolated a spoilage bacteria strain Aeromonas salmonicida GMT3 from refrigerated sturgeon.. The complete genome of A. salmonicida GMT3 was sequenced, and the QS related genes were assigned.



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    Denovo Biotechnology de novo transcriptome assembly and annotation
    Global overview of the Pyropia haitanensis <t>transcriptome</t> under different light irradiance conditions. ( A ) Principal component analysis (PCA); ( B ) Venn diagram analysis; ( C ) number of differentially expressed genes. LIS-CK vs. LIS-LI1d, comparison between the control sample of LIS strain and the sample exposed to low irradiance for 1 day; LIS-CK vs. LIS-LI4d, comparison between the control sample of LIS strain and the sample exposed to low irradiance for 4 days; LIT-CK vs. LIT-LI1d, comparison between the control sample of LIT strain and the sample exposed to low irradiance for 1 day; LIT-CK vs. LIT-LI4d, comparison between the control sample of LIT strain and the sample exposed to low irradiance for 4 days. LIT, low irradiance-tolerant strain; LIS, low irradiance-sensitive strain. UP, up-regulated genes; DOWN, down-regulated genes.
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    Global overview of the Pyropia haitanensis transcriptome under different light irradiance conditions. ( A ) Principal component analysis (PCA); ( B ) Venn diagram analysis; ( C ) number of differentially expressed genes. LIS-CK vs. LIS-LI1d, comparison between the control sample of LIS strain and the sample exposed to low irradiance for 1 day; LIS-CK vs. LIS-LI4d, comparison between the control sample of LIS strain and the sample exposed to low irradiance for 4 days; LIT-CK vs. LIT-LI1d, comparison between the control sample of LIT strain and the sample exposed to low irradiance for 1 day; LIT-CK vs. LIT-LI4d, comparison between the control sample of LIT strain and the sample exposed to low irradiance for 4 days. LIT, low irradiance-tolerant strain; LIS, low irradiance-sensitive strain. UP, up-regulated genes; DOWN, down-regulated genes.

    Journal: Life

    Article Title: Investigating the Mechanisms Underlying the Low Irradiance-Tolerance of the Economically Important Seaweed Species Pyropia haitanensis

    doi: 10.3390/life13020481

    Figure Lengend Snippet: Global overview of the Pyropia haitanensis transcriptome under different light irradiance conditions. ( A ) Principal component analysis (PCA); ( B ) Venn diagram analysis; ( C ) number of differentially expressed genes. LIS-CK vs. LIS-LI1d, comparison between the control sample of LIS strain and the sample exposed to low irradiance for 1 day; LIS-CK vs. LIS-LI4d, comparison between the control sample of LIS strain and the sample exposed to low irradiance for 4 days; LIT-CK vs. LIT-LI1d, comparison between the control sample of LIT strain and the sample exposed to low irradiance for 1 day; LIT-CK vs. LIT-LI4d, comparison between the control sample of LIT strain and the sample exposed to low irradiance for 4 days. LIT, low irradiance-tolerant strain; LIS, low irradiance-sensitive strain. UP, up-regulated genes; DOWN, down-regulated genes.

    Article Snippet: De novo transcriptome assembly and annotation (as described by Illumina) were completed by Gene Denovo Biotechnology Co., Ltd. (Guangzhou, China).

    Techniques: Comparison, Control